Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold793
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: 691781
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 1 of 5
Found at i:40 original size:22 final size:22
Alignment explanation
Indices: 4--45 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1 TTT
* * *
4 TTTCTTTTTTTTTTTTTCTTTC
1 TTTCTTTCTTATTTTCTCTTTC
26 TTTCTTTCTTATTTTCTCTT
1 TTTCTTTCTTATTTTCTCTT
46 CCTCTTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTCTTTCTTATTTTCTCTTTC
Found at i:41 original size:12 final size:11
Alignment explanation
Indices: 1--42 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
1 TTTTTTCTTT-
1 TTTTTTCTTTC
*
11 TTTTTTTTTTC
1 TTTTTTCTTTC
22 TTTCTTTCTTTC
1 TTT-TTTCTTTC
34 TTATTTTCT
1 TT-TTTTCT
43 CTTCCTCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 9 0.33
11 3 0.11
12 14 0.52
13 1 0.04
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:4039 original size:50 final size:50
Alignment explanation
Indices: 3949--4043 Score: 136
Period size: 50 Copynumber: 1.9 Consensus size: 50
3939 TTTGGGTAAA
* * * *
3949 AAACCTAGAATGTATTGATACAAGGAAGAATTTATTGATATATTTAGGTC
1 AAACCTAGAATGTATTGATACAAGAAAAAATGTATCGATATATTTAGGTC
* *
3999 AAACCTAGAATGTATTGATGCAATAAAAAATGTATCGATATATTT
1 AAACCTAGAATGTATTGATACAAGAAAAAATGTATCGATATATTT
4044 TCTTTCCAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (50 bp):
AAACCTAGAATGTATTGATACAAGAAAAAATGTATCGATATATTTAGGTC
Found at i:4123 original size:20 final size:20
Alignment explanation
Indices: 4079--4148 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
4069 TACATGATCC
* **
4079 TGTATCGATACATTTTAAGTA
1 TGTATCGATACA-TTCACTTA
4100 TGTATCGATACATTCACTTA
1 TGTATCGATACATTCACTTA
* *
4120 TGTATTGATATATTCACTTA
1 TGTATCGATACATTCACTTA
4140 TTGTATCGA
1 -TGTATCGA
4149 GACAAATTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 23 0.55
21 19 0.45
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATTCACTTA
Found at i:4985 original size:150 final size:152
Alignment explanation
Indices: 4710--5016 Score: 431
Period size: 150 Copynumber: 2.0 Consensus size: 152
4700 CAGTGGTTTA
* * *
4710 ATTTCATTAGTACAAATTGATTTCAAACATAGGTTTCCTTATATCATATGGCCATTAGACAAACC
1 ATTTCATTAGTACAAATTGATTTCAAACATAAGTTTCATTATATCATATGGACATTAGACAAACC
* * *
4775 CTTCTTGCATACCATAAAAGGTAGGGAAGCAAGCTATGCCTAATGGAAAGTGTTAGTTATAGCAT
66 CTTCTTGCATACCATAAAAGGTAGGGAAGCAAGATATGCCTAATGGAAAATGTCAGTTATAGCAT
*
4840 GCCTTGAAG-T-TGATTCTTAC
131 GCCGTGAAGCTGTGATTCTTAC
** * *
4860 ATTTCATTAGTGTAAATTGATTTCAAACATAAGTTTCATTATATCATATGGACATTGGACAAACT
1 ATTTCATTAGTACAAATTGATTTCAAACATAAGTTTCATTATATCATATGGACATTAGACAAACC
* * * * *
4925 TTTCTTGCATACCATATAAGGT-GGGCAGGCAAGATATGCTTAATGGAAAATGTCATTTATAGCA
66 CTTCTTGCATACCATAAAAGGTAGGG-AAGCAAGATATGCCTAATGGAAAATGTCAGTTATAGCA
4989 TGCCGTGAAGCCTGTGATTCTTAC
130 TGCCGTGAAG-CTGTGATTCTTAC
5013 ATTT
1 ATTT
5017 TTTTGACTTT
Statistics
Matches: 137, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
149 3 0.02
150 119 0.87
152 1 0.01
153 14 0.10
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (152 bp):
ATTTCATTAGTACAAATTGATTTCAAACATAAGTTTCATTATATCATATGGACATTAGACAAACC
CTTCTTGCATACCATAAAAGGTAGGGAAGCAAGATATGCCTAATGGAAAATGTCAGTTATAGCAT
GCCGTGAAGCTGTGATTCTTAC
Found at i:5856 original size:15 final size:14
Alignment explanation
Indices: 5836--5878 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
5826 ATATTAAACG
5836 TATAAAAACTAAAA
1 TATAAAAACTAAAA
* **
5850 TATTAAATTTAATAA
1 TATAAAAACTAA-AA
5865 TATAAAAACTAAAA
1 TATAAAAACTAAAA
5879 CTTTTTTTAC
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (14 bp):
TATAAAAACTAAAA
Found at i:11793 original size:13 final size:13
Alignment explanation
Indices: 11777--11802 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11767 TGATAATTTT
11777 TTAATTTAATTCC
1 TTAATTTAATTCC
11790 TTAATTTAATTCC
1 TTAATTTAATTCC
11803 ATCTCTCATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (13 bp):
TTAATTTAATTCC
Found at i:11979 original size:20 final size:21
Alignment explanation
Indices: 11922--11980 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
11912 TATATCTGTA
11922 AAAAATTTTATTT--TTAAATT
1 AAAAATTTTATTTAATT-AATT
**
11942 AAAAATTAAATATTAATTAATT
1 AAAAATTTTAT-TTAATTAATT
11964 -AAAATTTTATTTAATTA
1 AAAAATTTTATTTAATTA
11981 TTATTTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
20 16 0.50
21 10 0.31
22 4 0.12
23 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAAAATTTTATTTAATTAATT
Found at i:12120 original size:2 final size:2
Alignment explanation
Indices: 12115--12153 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
12105 AACATTCCTC
*
12115 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12154 AAAAAATTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:15495 original size:31 final size:31
Alignment explanation
Indices: 15459--15539 Score: 144
Period size: 31 Copynumber: 2.6 Consensus size: 31
15449 AGCCAGTAGC
**
15459 TAAATCAATGTGTGTTGCAAGCCAATACCTA
1 TAAATCAATGTGTGCGGCAAGCCAATACCTA
15490 TAAATCAATGTGTGCGGCAAGCCAATACCTA
1 TAAATCAATGTGTGCGGCAAGCCAATACCTA
15521 TAAATCAATGTGTGCGGCA
1 TAAATCAATGTGTGCGGCA
15540 TCTAATGTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (31 bp):
TAAATCAATGTGTGCGGCAAGCCAATACCTA
Found at i:16568 original size:3 final size:3
Alignment explanation
Indices: 16560--16593 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
16550 TTCATTTCAG
16560 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
16594 TTTTAATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:17284 original size:16 final size:16
Alignment explanation
Indices: 17255--17306 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
17245 TTTAATGATT
* * *
17255 AATTCGAAATAATTTG
1 AATTCAAAAAAATTTA
17271 AATTCAAAAAAATTTA
1 AATTCAAAAAAATTTA
* * *
17287 AACTCAAAAGAATTCA
1 AATTCAAAAAAATTTA
17303 AATT
1 AATT
17307 TTAACGAATT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.31
Consensus pattern (16 bp):
AATTCAAAAAAATTTA
Found at i:18058 original size:14 final size:13
Alignment explanation
Indices: 18038--18069 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
18028 AACAAAAGAT
18038 AATATATA-ATTA
1 AATATATATATTA
18050 AATATATATATTA
1 AATATATATATTA
18063 AAT-TATA
1 AATATATA
18070 AAAATATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATATATATATTA
Found at i:18555 original size:24 final size:25
Alignment explanation
Indices: 18528--18590 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
18518 TATCATGTCG
* *
18528 TATTTATTATATTATTTTTATG-TT
1 TATTTATTATATTATATTTATGATA
* *
18552 TATTAAATATATTATATTTATGATA
1 TATTTATTATATTATATTTATGATA
*
18577 TATTT-TTGTATTAT
1 TATTTATTATATTAT
18591 GCCTTAAATG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
24 26 0.84
25 5 0.16
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (25 bp):
TATTTATTATATTATATTTATGATA
Found at i:21171 original size:21 final size:21
Alignment explanation
Indices: 21147--21187 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
21137 AGTTACTTAT
* *
21147 TTTTAATTATTTTTAAATTAG
1 TTTTAATTATATTCAAATTAG
*
21168 TTTTATTTATATTCAAATTA
1 TTTTAATTATATTCAAATTA
21188 TTAAGTGCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTTAATTATATTCAAATTAG
Found at i:23299 original size:27 final size:28
Alignment explanation
Indices: 23232--23299 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 28
23222 GAAAATATAA
* *
23232 AGAATTAG-AAGTAAAAAATCTAGAATT
1 AGAATTAGAAAATAAAAAATCTAAAATT
* *
23259 GGAATATA-ATAATAAAAAAT-TAAAATT
1 AGAAT-TAGAAAATAAAAAATCTAAAATT
23286 AGAATTAGAAAATA
1 AGAATTAGAAAATA
23300 TGAAACTAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
26 2 0.06
27 19 0.59
28 11 0.34
ACGTcount: A:0.60, C:0.01, G:0.12, T:0.26
Consensus pattern (28 bp):
AGAATTAGAAAATAAAAAATCTAAAATT
Found at i:27400 original size:51 final size:52
Alignment explanation
Indices: 27327--27449 Score: 176
Period size: 51 Copynumber: 2.4 Consensus size: 52
27317 TCTAGAATGA
* * **
27327 AAATGTATCGATACATTTTTCATTGTATCGATAGGTTCTGGGTTT-TGACCT
1 AAATGTATTGATACATTCTTCATTGTATCGATAAATTCTGGGTTTCTGACCT
* *
27378 AAATTTATTGATACATTCTTCATTGTGTCGATAAATTCTGGGTTTCTGACCT
1 AAATGTATTGATACATTCTTCATTGTATCGATAAATTCTGGGTTTCTGACCT
*
27430 AAATGTATTAATACATTCTT
1 AAATGTATTGATACATTCTT
27450 TAATGTAACG
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
51 39 0.62
52 24 0.38
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (52 bp):
AAATGTATTGATACATTCTTCATTGTATCGATAAATTCTGGGTTTCTGACCT
Found at i:29899 original size:84 final size:86
Alignment explanation
Indices: 29756--29917 Score: 256
Period size: 84 Copynumber: 1.9 Consensus size: 86
29746 ACCATACTCT
* *
29756 TCAAAATTTGTCAAGATTTGAACCCCTTACTTTGTCAAAATTATTTGTCATCAATGGGGATACTC
1 TCAAAATTTGTCAAGATTTGAAACCCTTACTTTGTCAAAATTATTTGTCATCAACGGGGATACTC
29821 CAA-CCCATCTTTCCAAGGGG
66 CAACCCCATCTTTCCAAGGGG
* * *
29841 TCAAAATTTGTTAAGATTT-AAACCCTTCCTTTGTCAAAATTATTTGTCATTAACGGGGATACTC
1 TCAAAATTTGTCAAGATTTGAAACCCTTACTTTGTCAAAATTATTTGTCATCAACGGGGATACTC
*
29905 TAACCCCATCTTT
66 CAACCCCATCTTT
29918 TCGAGGGGAT
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
84 43 0.61
85 27 0.39
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.36
Consensus pattern (86 bp):
TCAAAATTTGTCAAGATTTGAAACCCTTACTTTGTCAAAATTATTTGTCATCAACGGGGATACTC
CAACCCCATCTTTCCAAGGGG
Found at i:31935 original size:23 final size:22
Alignment explanation
Indices: 31898--31955 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
31888 TGAAAAACAC
*
31898 TTTTATTATTATTATTTTTAGATTT
1 TTTTATT-TT-TTATTTATA-ATTT
*
31923 TTTTATTTTTTATTTATACTTT
1 TTTTATTTTTTATTTATAATTT
31945 TTTTATTTTTT
1 TTTTATTTTTT
31956 TTGAAAATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 14 0.45
23 8 0.26
24 2 0.06
25 7 0.23
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTATTTTTTATTTATAATTT
Found at i:34373 original size:21 final size:22
Alignment explanation
Indices: 34344--34395 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
34334 CGTCGCCATA
*
34344 GTATTGATATAATAAATG-AAT
1 GTATCGATATAATAAATGTAAT
* * *
34365 GTATCGATA-CATGATTGTAAT
1 GTATCGATATAATAAATGTAAT
34386 GTATCGATAT
1 GTATCGATAT
34396 TGGACCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.38
Consensus pattern (22 bp):
GTATCGATATAATAAATGTAAT
Found at i:37603 original size:20 final size:20
Alignment explanation
Indices: 37571--37623 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
37561 CTAAAAAACT
*
37571 TGTATCGATACATAAGTAAA
1 TGTATCAATACATAAGTAAA
*
37591 TGTCTCAATACATAAGTAAA
1 TGTATCAATACATAAGTAAA
*
37611 TGTATCGATACAT
1 TGTATCAATACAT
37624 TTTTCATTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (20 bp):
TGTATCAATACATAAGTAAA
Found at i:45273 original size:19 final size:19
Alignment explanation
Indices: 45249--45287 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
45239 AGAGAGGTTT
45249 TAATTTAATT-CTCAAAAAC
1 TAATTTAATTCCT-AAAAAC
45268 TAATTTAATTCCTAAAAAC
1 TAATTTAATTCCTAAAAAC
45287 T
1 T
45288 GTCCAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATTTAATTCCTAAAAAC
Found at i:47426 original size:25 final size:25
Alignment explanation
Indices: 47398--47446 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
47388 TATATAGCTT
* *
47398 TATTTCTTTTTAATTGTTTTTAAAA
1 TATTTATTTTTAATTGTCTTTAAAA
*
47423 TATTTATTTTTATTTGTCTTTAAA
1 TATTTATTTTTAATTGTCTTTAAA
47447 TTACTTAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (25 bp):
TATTTATTTTTAATTGTCTTTAAAA
Found at i:50461 original size:16 final size:16
Alignment explanation
Indices: 50440--50479 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
50430 TTTTTAAAAA
*
50440 AAAATATTTGC-ATTTG
1 AAAATATTT-CAATATG
50456 AAAATATTTCAATATG
1 AAAATATTTCAATATG
50472 AAAATATT
1 AAAATATT
50480 ATAGGTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 1 0.05
16 21 0.95
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (16 bp):
AAAATATTTCAATATG
Found at i:50914 original size:16 final size:16
Alignment explanation
Indices: 50893--50934 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
50883 CTCGATTGGC
50893 TCAAATCTAAAATAAA
1 TCAAATCTAAAATAAA
*
50909 TCAAATCT-AAATAAT
1 TCAAATCTAAAATAAA
*
50924 TCAAACCTAAA
1 TCAAATCTAAA
50935 GTGACTCGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.26
Consensus pattern (16 bp):
TCAAATCTAAAATAAA
Found at i:54423 original size:142 final size:140
Alignment explanation
Indices: 54260--54569 Score: 410
Period size: 142 Copynumber: 2.2 Consensus size: 140
54250 AATTTTTATT
* *
54260 TTTTTCAATATTTCTATTATTCCTATGGTTATCCGT-AAGAGTAT-AAAAATCTTCAAAACTTTT
1 TTTTTCAAGATTTCTAATATTCCTATGGTTATCCGTAAAGA-TATAAAAAAT-TTCAAAACTTTT
** * * *
54323 CGTATCTTTTCGGTTCTTTATTAAGGTACGAAAT-AATTTTTTTTAAAATTAAAAATTAAATAAA
64 CGTATCTTTTCGGTTCTCCATTAAAGTACGAAATGAA-TTTTTTGAAAATT-AAAAGTAAATAAA
54387 AATTATTATCTTAA
127 AATTATTATCTTAA
** * * * *
54401 TATTTTTTAGATTTCTAATATTCTTATGGTTATTCGTAAAGATATAAAAAATTTTAAAATTTTTC
1 T-TTTTCAAGATTTCTAATATTCCTATGGTTATCCGTAAAGATATAAAAAATTTCAAAACTTTTC
*
54466 GTATCTTTTCGGTTCTCCATTAAAGTATGAAATGAATTTTTTGAAAATTAAAAGTAAATAAAAAT
65 GTATCTTTTCGGTTCTCCATTAAAGTACGAAATGAATTTTTTGAAAATTAAAAGTAAATAAAAAT
54531 TATTATCTTAA
130 TATTATCTTAA
* *
54542 TTTTTCAAGATTTTTAATATTTCTATGG
1 TTTTTCAAGATTTCTAATATTCCTATGG
54570 GTATGAAAAT
Statistics
Matches: 146, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
140 22 0.15
141 28 0.19
142 84 0.58
143 12 0.08
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.46
Consensus pattern (140 bp):
TTTTTCAAGATTTCTAATATTCCTATGGTTATCCGTAAAGATATAAAAAATTTCAAAACTTTTCG
TATCTTTTCGGTTCTCCATTAAAGTACGAAATGAATTTTTTGAAAATTAAAAGTAAATAAAAATT
ATTATCTTAA
Found at i:54972 original size:230 final size:230
Alignment explanation
Indices: 54569--54994 Score: 798
Period size: 230 Copynumber: 1.9 Consensus size: 230
54559 TATTTCTATG
* *
54569 GGTATGAAAATTTTCAAAACTTTTTGTATCCCCTGATTTTTGGTCGTGTACAAAATGATTTCTTT
1 GGTATGAAAATTTTCAAAACTTTTTGTATCCCCTGATTTTTCGCCGTGTACAAAATGATTTCTTT
54634 CAAGAAAATAATAAATCAATTAATAAAAGTTAATATGTTACAATTATTTATTTTCATTTTAATTT
66 CAAGAAAATAATAAATCAATTAATAAAAGTTAATATGTTACAATTATTTATTTTCATTTTAATTT
* *
54699 CTTTCATTTCCATAGTTCTTTGTAGATATAAAGAAATTCCTTAAAACCTTTTGTGTTATTTCGAT
131 CTTTCATTTCCATAGTTCTCTGTAGATATAAAAAAATTCCTTAAAACCTTTTGTGTTATTTCGAT
54764 CTAAGATTTCTAATATTTCTATAATTTTCTGTAGA
196 CTAAGATTTCTAATATTTCTATAATTTTCTGTAGA
*
54799 GGTATGAAAATTTTCAAAACTTTTTGTATCTCCTGATTTTTCGCCGTGTACAAAATGATTTCTTT
1 GGTATGAAAATTTTCAAAACTTTTTGTATCCCCTGATTTTTCGCCGTGTACAAAATGATTTCTTT
54864 CAAGAAAATAATAAATCAATTAATAAAAGTTAATATGTTACAATTATTTATTTTCATTTTAATTT
66 CAAGAAAATAATAAATCAATTAATAAAAGTTAATATGTTACAATTATTTATTTTCATTTTAATTT
*
54929 CTTTCATTTCTATAGTTCTCTGTAGATATAAAAAAATTCCTTAAAACCTTTTGTGTTATTTCGAT
131 CTTTCATTTCCATAGTTCTCTGTAGATATAAAAAAATTCCTTAAAACCTTTTGTGTTATTTCGAT
54994 C
196 C
54995 CCTAGTGAAC
Statistics
Matches: 190, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
230 190 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (230 bp):
GGTATGAAAATTTTCAAAACTTTTTGTATCCCCTGATTTTTCGCCGTGTACAAAATGATTTCTTT
CAAGAAAATAATAAATCAATTAATAAAAGTTAATATGTTACAATTATTTATTTTCATTTTAATTT
CTTTCATTTCCATAGTTCTCTGTAGATATAAAAAAATTCCTTAAAACCTTTTGTGTTATTTCGAT
CTAAGATTTCTAATATTTCTATAATTTTCTGTAGA
Found at i:56653 original size:42 final size:42
Alignment explanation
Indices: 56593--56679 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
56583 TATCATTTGG
*
56593 AACAAGGTAAGAAATGGAATTCTTCAA-CTCCTAAATGATTCAA
1 AACAAGGTAAGAAATGGAATTCATCAACCTCC-AAATGATT-AA
56636 AACAA-GTAAGAAATGGAATTCATCAACCTCCAAATGATTAA
1 AACAAGGTAAGAAATGGAATTCATCAACCTCCAAATGATTAA
56677 AAC
1 AAC
56680 CAATTGAGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
41 5 0.12
42 28 0.67
43 9 0.21
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (42 bp):
AACAAGGTAAGAAATGGAATTCATCAACCTCCAAATGATTAA
Found at i:61461 original size:14 final size:12
Alignment explanation
Indices: 61429--61468 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
61419 TAATGGACAA
61429 TAATTTTTTTTT
1 TAATTTTTTTTT
61441 TAATTTTTTATTT
1 TAATTTTTT-TTT
* *
61454 TCAGTTTTTTTT
1 TAATTTTTTTTT
61466 TAA
1 TAA
61469 AATTTTTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (12 bp):
TAATTTTTTTTT
Found at i:62004 original size:16 final size:17
Alignment explanation
Indices: 61979--62012 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
61969 TAATAAATAA
61979 AAATTATAAAA-TTAAT
1 AAATTATAAAATTTAAT
*
61995 AAATTTTAAAATTTAAT
1 AAATTATAAAATTTAAT
62012 A
1 A
62013 TTTACAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATTATAAAATTTAAT
Found at i:62277 original size:17 final size:19
Alignment explanation
Indices: 62255--62291 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
62245 TCAAACACAT
62255 ATTTA-TTTA-ATATTTAA
1 ATTTATTTTATATATTTAA
62272 ATTTATTTTATATATTTAA
1 ATTTATTTTATATATTTAA
62291 A
1 A
62292 AAATTATACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 4 0.22
19 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTATTTTATATATTTAA
Found at i:64764 original size:20 final size:20
Alignment explanation
Indices: 64741--64778 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
64731 TTTGATCTAA
64741 CAAGATGCTATTAAACTTTG
1 CAAGATGCTATTAAACTTTG
*
64761 CAAGATGTTATTAAACTT
1 CAAGATGCTATTAAACTT
64779 GTAAGTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (20 bp):
CAAGATGCTATTAAACTTTG
Found at i:72774 original size:14 final size:14
Alignment explanation
Indices: 72739--72787 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
72729 GTATAATTTT
*
72739 TTAATTTATAGAT-T
1 TTAATTTAT-GATAA
72753 TTAA-TTATGA-AA
1 TTAATTTATGATAA
72765 TTAAATTTATGATAA
1 TT-AATTTATGATAA
72780 TTAATTTA
1 TTAATTTA
72788 AATTGGATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
12 4 0.13
13 6 0.20
14 16 0.53
15 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (14 bp):
TTAATTTATGATAA
Found at i:73285 original size:28 final size:27
Alignment explanation
Indices: 73232--73286 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
73222 ACAGGGCAGA
*
73232 TTTCATTATCCAATTTTATTGGTGTTAT
1 TTTCAATATCCAATTTTATT-GTGTTAT
73260 TTTCAATATCCAAATTTCTATT-TGTTA
1 TTTCAATATCC-AATTT-TATTGTGTTA
73287 GAAAATATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 15 0.62
29 5 0.21
30 4 0.17
ACGTcount: A:0.25, C:0.13, G:0.07, T:0.55
Consensus pattern (27 bp):
TTTCAATATCCAATTTTATTGTGTTAT
Found at i:77815 original size:61 final size:61
Alignment explanation
Indices: 77747--77994 Score: 221
Period size: 61 Copynumber: 4.1 Consensus size: 61
77737 TTTAGGGTTT
*
77747 TATAGTTATACTAATAGTAGTTGAAATTGGTGATTAGTAATCTAATTGATCAATTTTTATA
1 TATAGTTATACTAATAGTAGTTGAAATTGGTGATTAGTAATCTAATTGATCAATTTGTATA
* * * * * **
77808 AACAGTTATGCTAATAGTAGTTGAAATTGGTGATAACTAGCCTAATTGAT-AACTTTGTATA
1 TATAGTTATACTAATAGTAGTTGAAATTGGTGATTAGTAATCTAATTGATCAA-TTTGTATA
* ** ** * * ** * *
77869 TATAATTATGTTAATTCTACTTTAAATCAGTGATTAGCAATCTAATTGATCAATTTGTACA
1 TATAGTTATACTAATAGTAGTTGAAATTGGTGATTAGTAATCTAATTGATCAATTTGTATA
* * * ** * * *
77930 TATAGTTACACCAACT-GTAGTTAAAATTGGTGATTAGTAGCCCAATTGATGAATTTATATA
1 TATAGTTATACTAA-TAGTAGTTGAAATTGGTGATTAGTAATCTAATTGATCAATTTGTATA
77991 TATA
1 TATA
77995 TATATAGAGA
Statistics
Matches: 143, Mismatches: 41, Indels: 6
0.75 0.22 0.03
Matches are distributed among these distances:
60 2 0.01
61 138 0.97
62 3 0.02
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (61 bp):
TATAGTTATACTAATAGTAGTTGAAATTGGTGATTAGTAATCTAATTGATCAATTTGTATA
Found at i:78548 original size:12 final size:12
Alignment explanation
Indices: 78518--78566 Score: 55
Period size: 12 Copynumber: 4.0 Consensus size: 12
78508 ATGAAACATC
78518 TAAAAATATA-T
1 TAAAAATATATT
*
78529 TAATAAATTTATT
1 TAA-AAATATATT
78542 TAAAAATAATATT
1 TAAAAAT-ATATT
*
78555 TAAAATTATATT
1 TAAAAATATATT
78567 GGAAATAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
11 3 0.09
12 15 0.47
13 14 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TAAAAATATATT
Found at i:78549 original size:24 final size:26
Alignment explanation
Indices: 78518--78591 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 26
78508 ATGAAACATC
78518 TAAAAATATATTAATAAATT-TATT-
1 TAAAAATATATTAATAAATTATATTG
*
78542 TAAAAATAATATTTA-AAATTATATTG
1 TAAAAAT-ATATTAATAAATTATATTG
* *
78568 GAAATAATATTTTAAATAAATTAT
1 TAAA-AATATATT-AATAAATTAT
78592 GCATAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
24 12 0.30
25 10 0.25
26 7 0.17
27 4 0.10
28 7 0.17
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (26 bp):
TAAAAATATATTAATAAATTATATTG
Found at i:78584 original size:12 final size:12
Alignment explanation
Indices: 78538--78635 Score: 63
Period size: 12 Copynumber: 7.6 Consensus size: 12
78528 TTAATAAATT
78538 TATTTAAAAATAA
1 TATTT-AAAATAA
*
78551 TATTTAAAATTA
1 TATTTAAAATAA
**
78563 TATTGGAAATAA
1 TATTTAAAATAA
*
78575 TATTTTAAATAAA
1 TATTTAAAAT-AA
*
78588 TTATGCATAAAATAA
1 -TAT--TTAAAATAA
78603 TATTTATAAAT-A
1 TATTTA-AAATAA
*
78615 TATTATACACATAA
1 TATT-TA-AAATAA
78629 TATTTAA
1 TATTTAA
78636 TATTAAAGAA
Statistics
Matches: 67, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
12 31 0.46
13 18 0.27
14 11 0.16
15 2 0.03
16 5 0.07
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (12 bp):
TATTTAAAATAA
Found at i:78591 original size:28 final size:27
Alignment explanation
Indices: 78569--78634 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 27
78559 ATTATATTGG
78569 AAATAATATTT-TAAATAAATTATGCATA
1 AAATAATATTTATAAATAAATTAT--ATA
* *
78597 AAATAATATTTATAAATATATTATA-C
1 AAATAATATTTATAAATAAATTATATA
*
78623 ACATAATATTTA
1 AAATAATATTTA
78635 ATATTAAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.32
27 1 0.03
28 11 0.32
29 11 0.32
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (27 bp):
AAATAATATTTATAAATAAATTATATA
Found at i:78630 original size:29 final size:28
Alignment explanation
Indices: 78569--78630 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
78559 ATTATATTGG
* *
78569 AAATAATATTTTAAATAAATTATGCATA
1 AAATAATATTTTAAATAAATTATACACA
*
78597 AAATAATATTTATAAATATATTATACACA
1 AAATAATATTT-TAAATAAATTATACACA
*
78626 TAATA
1 AAATA
78631 TTTAATATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 11 0.38
29 18 0.62
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (28 bp):
AAATAATATTTTAAATAAATTATACACA
Found at i:81798 original size:8 final size:8
Alignment explanation
Indices: 81785--81837 Score: 61
Period size: 8 Copynumber: 6.1 Consensus size: 8
81775 AAAATCAGGT
81785 ATAAAAAA
1 ATAAAAAA
81793 ATAAAAAA
1 ATAAAAAA
*
81801 TTCAAAAAA
1 AT-AAAAAA
81810 ATTCAAAAAA
1 A-T-AAAAAA
81820 TATAAAAAA
1 -ATAAAAAA
81829 ATAAAAAA
1 ATAAAAAA
81837 A
1 A
81838 AGTCAGGGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
8 18 0.45
9 12 0.30
10 9 0.22
11 1 0.03
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (8 bp):
ATAAAAAA
Found at i:81827 original size:10 final size:10
Alignment explanation
Indices: 81787--81838 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
81777 AATCAGGTAT
81787 AAAAAA-AT-
1 AAAAAATATA
81795 AAAAAAT-TCA
1 AAAAAATAT-A
*
81805 AAAAAAT-TC
1 AAAAAATATA
81814 AAAAAATATA
1 AAAAAATATA
81824 AAAAAATA-A
1 AAAAAATATA
81833 AAAAAA
1 AAAAAA
81839 GTCAGGGATG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
8 7 0.18
9 14 0.37
10 17 0.45
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAATATA
Found at i:81835 original size:9 final size:9
Alignment explanation
Indices: 81787--81838 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
81777 AATCAGGTAT
81787 AAAAAAAT-
1 AAAAAAATA
* *
81795 AAAAAATTC
1 AAAAAAATA
*
81804 AAAAAAATT
1 AAAAAAATA
*
81813 CAAAAAATA
1 AAAAAAATA
81822 TAAAAAAATA
1 -AAAAAAATA
81832 AAAAAAA
1 AAAAAAA
81839 GTCAGGGATG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
8 7 0.19
9 21 0.58
10 8 0.22
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (9 bp):
AAAAAAATA
Found at i:81837 original size:19 final size:19
Alignment explanation
Indices: 81756--81838 Score: 64
Period size: 19 Copynumber: 4.3 Consensus size: 19
81746 GTTTTCTTTT
*
81756 AAAAATATATATAAAATAAA
1 AAAAATATA-AAAAAATAAA
*
81776 AAATCAGGTATAAAAAAAT--A
1 AAA--A-ATATAAAAAAATAAA
**
81796 AAAAAT-TCAAAAAAATTCA
1 AAAAATAT-AAAAAAATAAA
81815 AAAAATATAAAAAAATAAA
1 AAAAATATAAAAAAATAAA
81834 AAAAA
1 AAAAA
81839 GTCAGGGATG
Statistics
Matches: 51, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
16 1 0.02
17 9 0.18
18 1 0.02
19 21 0.41
20 8 0.16
22 7 0.14
23 4 0.08
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (19 bp):
AAAAATATAAAAAAATAAA
Found at i:82879 original size:18 final size:18
Alignment explanation
Indices: 82835--82872 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
82825 ACAAGAAAGG
* *
82835 AAACCGCAATAAACAGCA
1 AAACCGTAACAAACAGCA
82853 AAACCGTAACAAACAGCA
1 AAACCGTAACAAACAGCA
82871 AA
1 AA
82873 CCAGTAAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.58, C:0.26, G:0.11, T:0.05
Consensus pattern (18 bp):
AAACCGTAACAAACAGCA
Found at i:83122 original size:36 final size:36
Alignment explanation
Indices: 83082--83172 Score: 155
Period size: 36 Copynumber: 2.5 Consensus size: 36
83072 ATAGTTAAAA
*
83082 TGTTTCATACATGATGTTATTGCTATGACTTTTATG
1 TGTTTCATACATGATGTTATTGCTATAACTTTTATG
83118 TGTTTCATACATGATGTTATTGCTATAACTTTTATG
1 TGTTTCATACATGATGTTATTGCTATAACTTTTATG
* *
83154 TGTTTTATGCATGATGTTA
1 TGTTTCATACATGATGTTA
83173 CTGTAGTTCC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.23, C:0.10, G:0.16, T:0.51
Consensus pattern (36 bp):
TGTTTCATACATGATGTTATTGCTATAACTTTTATG
Found at i:83288 original size:167 final size:167
Alignment explanation
Indices: 83002--83303 Score: 541
Period size: 167 Copynumber: 1.8 Consensus size: 167
82992 GTTTTGTTTA
* * *
83002 GTTACCGTAATTCCCTTTCTCAAGTTTCATCGTATGTGTTTGTAAACATTTTGATGCTGGAATCT
1 GTTACCGTAATTCCCTTTCTCAAGTTTCATCATATGTGTTTGTAAACATTCTGATGCTAGAATCT
83067 TTTAGATAGTTAAAATGTTTCATACATGATGTTATTGCTATGACTTTTATGTGTTTCATACATGA
66 TTTAGATAGTTAAAATGTTTCATACATGATGTTATTGCTATGACTTTTATGTGTTTCATACATGA
83132 TGTTATTGCTATAACTTTTATGTGTTTTATGCATGAT
131 TGTTATTGCTATAACTTTTATGTGTTTTATGCATGAT
* *
83169 GTTACTGTAGTTCCCTTTCTCAAGTTTCATCATATGTGTTTGTAAACATTCTGATGCTAGAATCT
1 GTTACCGTAATTCCCTTTCTCAAGTTTCATCATATGTGTTTGTAAACATTCTGATGCTAGAATCT
* *
83234 TTTAGGTAGTTAAAATGTTTCATACATGATGTTATTGCTATGACTTTTATGTGTTTCATGCATGA
66 TTTAGATAGTTAAAATGTTTCATACATGATGTTATTGCTATGACTTTTATGTGTTTCATACATGA
83299 TGTTA
131 TGTTA
83304 CCGTAGTTCC
Statistics
Matches: 128, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
167 128 1.00
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.46
Consensus pattern (167 bp):
GTTACCGTAATTCCCTTTCTCAAGTTTCATCATATGTGTTTGTAAACATTCTGATGCTAGAATCT
TTTAGATAGTTAAAATGTTTCATACATGATGTTATTGCTATGACTTTTATGTGTTTCATACATGA
TGTTATTGCTATAACTTTTATGTGTTTTATGCATGAT
Found at i:86079 original size:12 final size:12
Alignment explanation
Indices: 86062--86086 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
86052 CAGTCACTAA
86062 TTTATTTTCCTT
1 TTTATTTTCCTT
86074 TTTATTTTCCTT
1 TTTATTTTCCTT
86086 T
1 T
86087 ATCATGCATT
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:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTATTTTCCTT
Found at i:88953 original size:71 final size:71
Alignment explanation
Indices: 88837--88980 Score: 270
Period size: 71 Copynumber: 2.0 Consensus size: 71
88827 TCATCATCCC
* *
88837 ACACAAATTCAAGGTGCTAGAATTTGAGAAATATAATAGGACCATAGATCCCAGTGCCCACCTTA
1 ACACAAATTCAAGGTGCCAGAATTTGAAAAATATAATAGGACCATAGATCCCAGTGCCCACCTTA
88902 GGATGT
66 GGATGT
88908 ACACAAATTCAAGGTGCCAGAATTTGAAAAATATAATAGGACCATAGATCCCAGTGCCCACCTTA
1 ACACAAATTCAAGGTGCCAGAATTTGAAAAATATAATAGGACCATAGATCCCAGTGCCCACCTTA
88973 GGATGT
66 GGATGT
88979 AC
1 AC
88981 TATTGTAAGA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.23
Consensus pattern (71 bp):
ACACAAATTCAAGGTGCCAGAATTTGAAAAATATAATAGGACCATAGATCCCAGTGCCCACCTTA
GGATGT
Found at i:96330 original size:23 final size:21
Alignment explanation
Indices: 96292--96345 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
96282 AAAAAAATAC
* *
96292 AAAAACAAAAAAAAGACAACAG
1 AAAAA-AAAAAAAAGAAAAAAG
96314 AAAAGAAAAAAACAAGAAAAAAG
1 AAAA-AAAAAAA-AAGAAAAAAG
96337 AAAAAAAAA
1 AAAAAAAAA
96346 GGGAAAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 15 0.54
23 13 0.46
ACGTcount: A:0.83, C:0.07, G:0.09, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAAAAGAAAAAAG
Found at i:96334 original size:17 final size:17
Alignment explanation
Indices: 96283--96359 Score: 61
Period size: 18 Copynumber: 4.4 Consensus size: 17
96273 TACTTTTGAA
96283 AAAAAATACAA-AAACAA-
1 AAAAAA-ACAAGAAA-AAG
*
96300 AAAAAAGACAACAGAAAAG
1 AAAAAA-ACAAGA-AAAAG
96319 AAAAAAACAAGAAAAAAG
1 AAAAAAACAAG-AAAAAG
**
96337 AAAAAAA-AAGGGAAAG
1 AAAAAAACAAGAAAAAG
96353 AAAAAAA
1 AAAAAAA
96360 AACTAGCTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
16 11 0.21
17 13 0.25
18 19 0.37
19 9 0.17
ACGTcount: A:0.81, C:0.06, G:0.12, T:0.01
Consensus pattern (17 bp):
AAAAAAACAAGAAAAAG
Found at i:97398 original size:61 final size:61
Alignment explanation
Indices: 97284--98016 Score: 768
Period size: 61 Copynumber: 12.0 Consensus size: 61
97274 AAACTTTTTT
* * * *
97284 ACCTTT-AGTCCTTAAAGAGCAGGATGCCCTTTTTCTTTTAAAGCTCACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACG-CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * **
97345 ACC-TTCTAGTCCTCAAAGAGCAAGACGCCTTCTCCTTTTAATGCCCATGCAAGTTGGTGGC
1 ACCTTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * * *
97406 ACCTTTCAGTCCTCAAAAAGTAGGATGCTTTTTCCTTTAAAAGCCCACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * * * * *
97467 ACCTTTCAGTCTTCAAAGAGTAGGATGCCTTCTCTTTTTAAAGCCCACATAAGTTAGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * * * *
97528 ACCTTTCAGTCCTCAAAGAGTAGGACGTCTTCTCCTTTAAAAGCCCACACAAGTTGTTAGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * *
97589 ACCTTTCAGTCCTCAAAGAGTAAGG-CGCCTTCTCCTTTAAAAGCCCATACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAG-CAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
** *
97650 ACCTTTCAGTTTTCAAAGAGCAGGA--CATTTTCCTTTTTAAAGCCCACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCC-TTTTAAAGCCCACACAAGTTGGTGGC
* * *
97710 ACCTTTCAGCCCTCAAAGA-CTAGGATGCCTTCTT-CTTTTAAAGCCTACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGC-AGGACGCCTT-TTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * ** **
97771 ACCTTTCAGTCCTTAAAGAGTAGGACGCCTTGT-CTTTTAAAAGCCCATGCAAGTTAATGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGC
* * * * * *
97832 ACCTTTCAATTCTCGAAA-AGTAGGA--CATTTTCCTTTTTAAAGCCTACATAAGTTGGTGGC
1 ACCTTTCAGTCCTC-AAAGAGCAGGACGCCTTTTCC-TTTTAAAGCCCACACAAGTTGGTGGC
* * * **
97892 ACCTTTCAGTCCTCAAAGAGCATGACGCCTTTTCCTTTTTAAAGTCCACACAGGTTGGCAGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCC-TTTTAAAGCCCACACAAGTTGGTGGC
* * *
97954 ACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACATAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
98016 A
1 A
98017 TCTTCTCTAA
Statistics
Matches: 560, Mismatches: 93, Indels: 37
0.81 0.13 0.05
Matches are distributed among these distances:
59 14 0.03
60 89 0.16
61 343 0.61
62 107 0.19
63 7 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (61 bp):
ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
Found at i:97791 original size:182 final size:182
Alignment explanation
Indices: 97319--98016 Score: 857
Period size: 182 Copynumber: 3.8 Consensus size: 182
97309 GCCCTTTTTC
* *
97319 TTTTAAAGCTCACACAAGTTGGTGGCACC-TTCTAGTCCTCAAAGAGCAAGACGCCTTCTCCTTT
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACGCCTTCTCCTTT
* ** * * * * *
97383 TAATGCCCATGCAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGTAGGATGCTTTTTCCTTTAAAA
65 TAAAGCCCACACAAGTTGGTAGCACCTTTCAGTCCTCAAAGAGTAGGACGCCTTCTCCTTTAAAA
* * * *
97448 GCCCACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGTAGGATGCCTTCT-CT
130 GCCCATACAAGTTGGTGGCACCTTTCAGTTTTCAAAGAGTAGGA--CATTTTCCT
* * * * *
97502 TTTTAAAGCCCACATAAGTTAGTGGCACCTTTCAGTCCTCAAAGAGTAGGACGTCTTCTCCTTTA
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
*
97567 AAAGCCCACACAAGTTGTTAGCACCTTTCAGTCCTCAAAGAGTAAGG-CGCCTTCTCCTTTAAAA
66 AAAGCCCACACAAGTTGGTAGCACCTTTCAGTCCTCAAAGAGT-AGGACGCCTTCTCCTTTAAAA
*
97631 GCCCATACAAGTTGGTGGCACCTTTCAGTTTTCAAAGAGCAGGACATTTTCCT
130 GCCCATACAAGTTGGTGGCACCTTTCAGTTTTCAAAGAGTAGGACATTTTCCT
* * *
97684 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGCCCTCAAAGA-CTAGGATGCCTTCTTCTTT
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGC-AGGACGCCTTCTCCTTT
* * * * *
97748 TAAAGCCTACACAAGTTGGTGGCACCTTTCAGTCCTTAAAGAGTAGGACGCCTTGTCTTTTAAAA
65 TAAAGCCCACACAAGTTGGTAGCACCTTTCAGTCCTCAAAGAGTAGGACGCCTTCTCCTTTAAAA
* ** * *
97813 GCCCATGCAAGTTAATGGCACCTTTCAATTCTCGAAA-AGTAGGACATTTTCCT
130 GCCCATACAAGTTGGTGGCACCTTTCAGTTTTC-AAAGAGTAGGACATTTTCCT
* * * *
97866 TTTTAAAGCCTACATAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCATGACGCCTTTTCCTTTT
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCC-TTT
* * * * * * * *
97931 TAAAGTCCACACAGGTTGGCAGCACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAA
65 TAAAGCCCACACAAGTTGGTAGCACCTTTCAGTCCTCAAAGAGTAGGACGCC-TTCTCCTTTAAA
* *
97996 AGCCCACATAAGTTGGTGGCA
129 AGCCCATACAAGTTGGTGGCA
98017 TCTTCTCTAA
Statistics
Matches: 443, Mismatches: 63, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
181 7 0.02
182 207 0.47
183 197 0.44
184 32 0.07
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (182 bp):
TTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
AAAGCCCACACAAGTTGGTAGCACCTTTCAGTCCTCAAAGAGTAGGACGCCTTCTCCTTTAAAAG
CCCATACAAGTTGGTGGCACCTTTCAGTTTTCAAAGAGTAGGACATTTTCCT
Found at i:98422 original size:13 final size:13
Alignment explanation
Indices: 98404--98428 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98394 ATTACTCAAA
98404 TGTATCGATACAT
1 TGTATCGATACAT
98417 TGTATCGATACA
1 TGTATCGATACA
98429 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:98482 original size:52 final size:51
Alignment explanation
Indices: 98417--98565 Score: 194
Period size: 52 Copynumber: 2.9 Consensus size: 51
98407 ATCGATACAT
**
98417 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTGAT-AATGTATCGATACATGCAGGCAAATTTGCCCAGA
* * *
98469 TGTATCGATACACT-ATGAAATATATCGATACATACAGGCAAATTTGCCTAGA
1 TGTATCGATACACTGAT--AATGTATCGATACATGCAGGCAAATTTGCCCAGA
98521 TGTATCGATACACCATGA-AATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACA-C-TGATAATGTATCGATACATGCAGGCAAATTT
98566 TCATATTTCG
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
51 2 0.02
52 80 0.94
53 1 0.01
54 1 0.01
55 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (51 bp):
TGTATCGATACACTGATAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:112413 original size:18 final size:18
Alignment explanation
Indices: 112392--112472 Score: 89
Period size: 18 Copynumber: 4.6 Consensus size: 18
112382 GGTGTCCTCT
112392 ACAAAAAAAACAAACAAA
1 ACAAAAAAAACAAACAAA
112410 ACAAAAAAAAACAAA-AAA
1 AC-AAAAAAAACAAACAAA
*
112428 AAAGAAAAAAAC-AACAAA
1 ACA-AAAAAAACAAACAAA
*
112446 A-AAATAAACACAAAC-AA
1 ACAAA-AAAAACAAACAAA
112463 ACAAAAAAAA
1 ACAAAAAAAA
112473 GAAGAAAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
16 2 0.04
17 16 0.30
18 24 0.44
19 12 0.22
ACGTcount: A:0.84, C:0.14, G:0.01, T:0.01
Consensus pattern (18 bp):
ACAAAAAAAACAAACAAA
Found at i:112420 original size:10 final size:10
Alignment explanation
Indices: 112394--112486 Score: 89
Period size: 10 Copynumber: 8.9 Consensus size: 10
112384 TGTCCTCTAC
112394 AAAAAAAAC-
1 AAAAAAAACA
*
112403 AAACAAAACA
1 AAAAAAAACA
112413 AAAAAAAACA
1 AAAAAAAACA
*
112423 AAAAAAAAGA
1 AAAAAAAACA
112433 AAAAAACAACAA
1 AAAAAA-AAC-A
112445 AAAAATAAACA
1 AAAAA-AAACA
* *
112456 CAAACAAACAA
1 AAAAAAAAC-A
*
112467 AAAAAAGAAGA
1 AAAAAA-AACA
112478 AAAAAAAAC
1 AAAAAAAAC
112487 CAACAACAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
9 8 0.12
10 30 0.44
11 18 0.26
12 11 0.16
13 1 0.01
ACGTcount: A:0.84, C:0.12, G:0.03, T:0.01
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:112484 original size:48 final size:48
Alignment explanation
Indices: 112395--112498 Score: 131
Period size: 48 Copynumber: 2.1 Consensus size: 48
112385 GTCCTCTACA
112395 AAAAAAACAAACAAAACAAAAAAAAACAAAAAAAAAGAAAAAAACAAC
1 AAAAAAACAAACAAAACAAAAAAAAACAAAAAAAAAGAAAAAAACAAC
* * * *
112443 AAAAAAATAAACACAAACAAACAAAAAA-AAGAAGAAA-AAAAAACCAAC
1 AAAAAAACAAACA-AAACAAA-AAAAAACAAAAAAAAAGAAAAAAACAAC
112491 AACAAAAA
1 AA-AAAAA
112499 GGGTCCGAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
48 24 0.49
49 19 0.39
50 6 0.12
ACGTcount: A:0.83, C:0.13, G:0.03, T:0.01
Consensus pattern (48 bp):
AAAAAAACAAACAAAACAAAAAAAAACAAAAAAAAAGAAAAAAACAAC
Found at i:112498 original size:1 final size:1
Alignment explanation
Indices: 112394--112485 Score: 58
Period size: 1 Copynumber: 92.0 Consensus size: 1
112384 TGTCCTCTAC
* * * * * * * * * *
112394 AAAAAAAACAAACAAAACAAAAAAAAACAAAAAAAAAGAAAAAAACAACAAAAAAATAAACACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
112459 ACAAACAAAAAAAAGAAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
112486 CCAACAACAA
Statistics
Matches: 63, Mismatches: 28, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.85, C:0.11, G:0.03, T:0.01
Consensus pattern (1 bp):
A
Found at i:113991 original size:28 final size:28
Alignment explanation
Indices: 113922--114305 Score: 407
Period size: 28 Copynumber: 13.4 Consensus size: 28
113912 CACCTTTTCT
* * * *
113922 AAAGCCCACAAGTCTGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAAC-CTTCA
113951 AAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* *
113979 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAACC--TTCA
114009 AAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* *
114037 AAAGCCCACAAGTTAGTGGC-ACTCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAAC-C--TTCA
*
114067 AAAGCCCACAAGTCAGTGGC-ACCTTTTTCC
1 AAAGCCCACAAGTCAGTGGCAACC---TTCA
* *
114097 AAAGCCCACAAGTCAGTGGCAACGTTCC
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
*
114125 AAAGCCCACAAGTCAATGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* *
114153 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAACC--TTCA
*
114183 AAAGCCCACAAGTCAGTAGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* * * *
114211 AAAGCCCACAAGTTAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCAAC-CTTCA
* *
114240 AAAGCCCACAAGTTAGTGGTAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* *
114268 AAAGCACACAAGT-TGT-GCAACCCTATCA
1 AAAGCCCACAAGTCAGTGGCAA-CCT-TCA
114296 AAAGCCCACA
1 AAAGCCCACA
114306 CAAGTTGGTG
Statistics
Matches: 311, Mismatches: 32, Indels: 25
0.85 0.09 0.07
Matches are distributed among these distances:
26 3 0.01
27 7 0.02
28 150 0.48
29 48 0.15
30 101 0.32
31 2 0.01
ACGTcount: A:0.33, C:0.31, G:0.17, T:0.20
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:114021 original size:58 final size:57
Alignment explanation
Indices: 113922--114280 Score: 515
Period size: 58 Copynumber: 6.2 Consensus size: 57
113912 CACCTTTTCT
*
113922 AAAGCCCACAAGTCTGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
*
113979 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* *
114037 AAAGCCCACAAGTTAGTGGCACTCTTTTCCAAAGCCCACAAGTCAGTGGC-ACCTTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCAACC---TTCA
* * *
114097 AAAGCCCACAAGTCAGTGGCAAC-GTTCCAAAGCCCACAAGTCAATGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* *
114153 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTAGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * * * *
114211 AAAGCCCACAAGTTAGTGGTATCTTTTCAAAAGCCCACAAGTTAGTGGTAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
*
114268 AAAGCACACAAGT
1 AAAGCCCACAAGT
114281 TGTGCAACCC
Statistics
Matches: 273, Mismatches: 22, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
56 24 0.09
57 67 0.25
58 155 0.57
59 4 0.01
60 23 0.08
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.20
Consensus pattern (57 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:114207 original size:174 final size:173
Alignment explanation
Indices: 113912--114258 Score: 588
Period size: 174 Copynumber: 2.0 Consensus size: 173
113902 AGACATTCCT
* * * * *
113912 CACCTTTTCTAAAGCCCACAAGTCTGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTT
1 CACCTTTTCCAAAGCCCACAAGTCAGTGGCAACTGTTCCAAAGCCCACAAGTCAATGGCAACCTT
*
113977 CAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGC
66 CAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTAGCAACCTTCAAAAGC
*
114042 CCACAAGTTAGTGGCACTCTTTTCCAAAGCCCACAAGTCAGTGG
131 CCACAAGTTAGTGGCA-TCTTTTCAAAAGCCCACAAGTCAGTGG
114086 CACCTTTTTCCAAAGCCCACAAGTCAGTGGCAAC-GTTCCAAAGCCCACAAGTCAATGGCAACCT
1 CACC-TTTTCCAAAGCCCACAAGTCAGTGGCAACTGTTCCAAAGCCCACAAGTCAATGGCAACCT
114150 TCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTAGCAACCTTCAAAAG
65 TCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTAGCAACCTTCAAAAG
* *
114215 CCCACAAGTTAGTGGTATCTTTTCAAAAGCCCACAAGTTAGTGG
130 CCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGG
114259 TAACCTTCAA
Statistics
Matches: 163, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
173 25 0.15
174 112 0.69
175 26 0.16
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (173 bp):
CACCTTTTCCAAAGCCCACAAGTCAGTGGCAACTGTTCCAAAGCCCACAAGTCAATGGCAACCTT
CAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTAGCAACCTTCAAAAGC
CCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGG
Found at i:114491 original size:49 final size:49
Alignment explanation
Indices: 114322--114957 Score: 655
Period size: 49 Copynumber: 12.8 Consensus size: 49
114312 GGTGGCATCT
* * * * *
114322 TCTTCTAAGTCCAATATTGCTGACCTTGAATCAGCATATTGGCGCCTTTGTCA
1 TCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCA
* *
114375 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCA----C-
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
114419 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTGTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT-TCA
114467 TCTTTAAGAT-CAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAG-TCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
114516 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTGTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCA
*
114568 TCTTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
1 TC-TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
114618 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * *
114667 TCCTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCA
* * *
114719 TCTTTAAGTCTAATGTCGTTGGCCTGGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
114768 TCTTTAAGTCTAATGTCGTTGGCCTGGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * * * *
114817 TCTTTAAAGAT-TAGTATCGCTGGCCTTGAATCAGCATATTGGCATCTTTAA
1 TCTTT-AAG-TCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTCA
* * * ** * **
114868 TATTCCTAAGCCCAATGTCACTGGCCTTGCCTCAGCACGTTGGCA--TTTT
1 TCTT--TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* ** *
114917 TCTTCAAGTTTAAATGTCGCTGGCCATGAATCAGCACATTG
1 TCTTTAAG-TCCAATGTCGCTGGCCTTGAATCAGCACATTG
114958 TCATTCTTCG
Statistics
Matches: 499, Mismatches: 61, Indels: 51
0.82 0.10 0.08
Matches are distributed among these distances:
43 38 0.08
45 1 0.00
47 4 0.01
48 25 0.05
49 230 0.46
50 39 0.08
51 11 0.02
52 106 0.21
53 45 0.09
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (49 bp):
TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:114612 original size:151 final size:150
Alignment explanation
Indices: 114420--114957 Score: 703
Period size: 151 Copynumber: 3.6 Consensus size: 150
114410 CATTGGCACC
* *
114420 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTGTCATCTTTAAGATCAATGTC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT-TCATCTTTAAG-TCAATGTC
*
114484 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAA
64 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
114549 CATATTGGCACCTTTGTCATCT
129 CATATTGGCACCTTTGTCATCT
*
114571 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCG
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT-CAATGTCG
*
114636 CTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATATCGCTGGCCTTGAATCAGC
65 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
*
114701 ATATTGGCGCCTTTGTCATC-
130 ATATTGGCACCTTTGTCATCT
* * *
114721 TTTAAGTCTAATGTCGTTGGCCTGGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATGTCG
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTC-AATGTCG
* * * *
114786 TTGGCCTGGAATCAGCACATTGGCACCTTCATCTTTAAAGAT-TAGTATCGCTGGCCTTGAATCA
65 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT-AAG-TCCAATATCGCTGGCCTTGAATCA
* *
114850 GCATATTGGCATCTTTAAT-AT-T
128 GCATATTGGCACCTTT-GTCATCT
** * * ** * ** * *
114872 CCTAAGCCCAATGTCACTGGCCTTGCCTCAGCACGTTGGCA--TTTTTCTTCAAGTTTAAATGTC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAG--TCAATGTC
*
114935 GCTGGCCATGAATCAGCACATTG
64 GCTGGCCTTGAATCAGCACATTG
114958 TCATTCTTCG
Statistics
Matches: 343, Mismatches: 35, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
149 10 0.03
150 119 0.35
151 210 0.61
152 4 0.01
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (150 bp):
TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCAATGTCGC
TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
TATTGGCACCTTTGTCATCT
Found at i:114688 original size:200 final size:200
Alignment explanation
Indices: 114322--114860 Score: 708
Period size: 200 Copynumber: 2.7 Consensus size: 200
114312 GGTGGCATCT
* * * *
114322 TCTTCTAAGTCCAATATTGCTGACCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGACCA
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCA
*
114387 ATGTCGCTGGCCTTGAATCAACACATTGGCA-C----CTTTAAGTCCAATATCGCTGGCCTTGAA
65 ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTATCTTTAAGTCCAATATCGCTGGCCTTGAA
* *
114447 TCAGCATATTGGCACTGTCATCTTTAAGATCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
130 TCAGCATATTGGCACTGTCATCCTTAAGATCAATATCGCTGGCCTTGAATCAGCACATTGGCACC
114512 -T-TCA
195 TTGTCA
*
114516 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTGTCATCTTTTAAGTCCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATC-TTTAAGTCCA
*
114581 ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGA
65 ATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTATCTTTAAGTCCAATATCGCTGGCCTTGA
* *
114646 ATCAGCACATTGGCACCT-TCATCCTTAAG-TCCAATATCGCTGGCCTTGAATCAGCATATTGGC
129 ATCAGCATATTGGCA-CTGTCATCCTTAAGAT-CAATATCGCTGGCCTTGAATCAGCACATTGGC
*
114709 GCCTTTGTCA
192 ACC-TTGTCA
* * * * * *
114719 TCTTTAAGTCTAATGTCGTTGGCCTGGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCTAA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAA
* * * *
114781 TGTCGTTGGCCTGGAATCAGCACATTGGCACCTTCATCTTTAAAGAT-TAGTATCGCTGGCCTTG
66 TGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-ATCTTT-AAG-TCCAATATCGCTGGCCTTG
114845 AATCAGCATATTGGCA
128 AATCAGCATATTGGCA
114861 TCTTTAATAT
Statistics
Matches: 305, Mismatches: 25, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
193 46 0.15
194 43 0.14
195 1 0.00
198 2 0.01
199 47 0.15
200 119 0.39
201 4 0.01
202 1 0.00
203 42 0.14
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (200 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAA
TGTCGCTGGCCTTGAATCAGCACATTGGCACCTTATCTTTAAGTCCAATATCGCTGGCCTTGAAT
CAGCATATTGGCACTGTCATCCTTAAGATCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT
TGTCA
Found at i:115736 original size:19 final size:18
Alignment explanation
Indices: 115711--115775 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
115701 ATTTCAACGA
115711 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
115729 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
*
115745 --TGTATTGATACATAAG
1 TTTGTATCGATACATAAG
115761 TTTTGTATCGATACA
1 -TTTGTATCGATACA
115776 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
17 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:115749 original size:32 final size:32
Alignment explanation
Indices: 115713--115783 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
115703 TTCAACGATT
115713 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
115745 TGTATTGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
115777 TGTATCG
1 TGTATCG
115784 CTACGAAGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:115830 original size:21 final size:21
Alignment explanation
Indices: 115804--115860 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
115794 ACTGCCAAGA
115804 AAATGTATCGATACATTACTC
1 AAATGTATCGATACATTACTC
115825 AAATGTATCGATACATTACTC
1 AAATGTATCGATACATTACTC
115846 AAATGTATCGATACA
1 AAATGTATCGATACA
115861 CTGATCTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.32
Consensus pattern (21 bp):
AAATGTATCGATACATTACTC
Found at i:115931 original size:52 final size:52
Alignment explanation
Indices: 115869--115997 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
115859 CACTGATCTT
* * *
115869 TGTATTGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACCATGAAA
*
115921 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACCATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACCATGAAA
115973 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
115998 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACCATGAAA
Found at i:119185 original size:62 final size:63
Alignment explanation
Indices: 119117--119352 Score: 229
Period size: 62 Copynumber: 3.8 Consensus size: 63
119107 TTAAAGCCCA
*
119117 ATATCGCTAGTCTTGAATCAACATATTGACACCTTTATCA-TTCTTTTCATCTTTCAAGCTTG
1 ATATCGCTAGTCTTGAATCAACATATCGACACCTTTATCATTTCTTTTCATCTTTCAAGCTTG
* * * **
119179 ATATCGCTGGCCGTGAATCAACATATCGACACCTTTATCATTTCTTTTCATCTTT-AAG-TCCA
1 ATATCGCTAGTCTTGAATCAACATATCGACACCTTTATCATTTCTTTTCATCTTTCAAGCT-TG
* * * * * *
119241 ATAAT-GCTAG-CTTTGAATCAGCATATTGGC-TC-TTGTCA-TTCTCTTCAT-TTTCAAGCTTG
1 AT-ATCGCTAGTC-TTGAATCAACATATCGACACCTTTATCATTTCTTTTCATCTTTCAAGCTTG
* * * * *
119300 ATATCACTGGTCATGAATCAGCATATCGACACCTTTATCATTTCTTTGCATCT
1 ATATCGCTAGTCTTGAATCAACATATCGACACCTTTATCATTTCTTTTCATCT
119353 CTAGGTCCAA
Statistics
Matches: 137, Mismatches: 25, Indels: 23
0.74 0.14 0.12
Matches are distributed among these distances:
58 5 0.04
59 32 0.23
60 8 0.06
61 8 0.06
62 67 0.49
63 17 0.12
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (63 bp):
ATATCGCTAGTCTTGAATCAACATATCGACACCTTTATCATTTCTTTTCATCTTTCAAGCTTG
Found at i:119379 original size:62 final size:61
Alignment explanation
Indices: 119114--119381 Score: 208
Period size: 62 Copynumber: 4.4 Consensus size: 61
119104 TCTTTAAAGC
* * *
119114 CCAATATCGCTAGTCTTGAATCAACATATTGACACCTTTATCATTCTTTTCATCTTTCAAG-
1 CCAATATCGCTGGTCTTGAATCAACATATCGACACCTTTATCATTCTTTTCATCTCT-AAGT
** * * *
119175 CTTGATATCGCTGGCCGTGAATCAACATATCGACACCTTTATCATTTCTTTTCATCTTTAAGT
1 C-CAATATCGCTGGTCTTGAATCAACATATCGACACCTTTATCA-TTCTTTTCATCTCTAAGT
* * * * * * * *
119238 CCAATAAT-GCTAG-CTTTGAATCAGCATATTGGC-TC-TTGTCATTCTCTTCAT-TTTCAAG-
1 CCAAT-ATCGCTGGTC-TTGAATCAACATATCGACACCTTTATCATTCTTTTCATCTCT-AAGT
** * * * * *
119296 CTTGATATCACTGGTCATGAATCAGCATATCGACACCTTTATCATTTCTTTGCATCTCTAGGT
1 C-CAATATCGCTGGTCTTGAATCAACATATCGACACCTTTATCA-TTCTTTTCATCTCTAAGT
119359 CCAATATCGCTGGTCTTGAATCA
1 CCAATATCGCTGGTCTTGAATCA
119382 TATTAGCACT
Statistics
Matches: 160, Mismatches: 33, Indels: 27
0.73 0.15 0.12
Matches are distributed among these distances:
58 6 0.04
59 32 0.20
60 7 0.04
61 8 0.05
62 87 0.54
63 20 0.12
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (61 bp):
CCAATATCGCTGGTCTTGAATCAACATATCGACACCTTTATCATTCTTTTCATCTCTAAGT
Found at i:120345 original size:9 final size:9
Alignment explanation
Indices: 120333--120382 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
120323 TATATAAAAT
120333 AAAAATAAA
1 AAAAATAAA
*
120342 AAAACTCAAA
1 AAAAAT-AAA
* *
120352 AAAATTTAA
1 AAAAATAAA
120361 AAAAATAAA
1 AAAAATAAA
120370 AAAAATAAA
1 AAAAATAAA
120379 AAAA
1 AAAA
120383 GTTGCGGACG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
9 27 0.77
10 8 0.23
ACGTcount: A:0.82, C:0.04, G:0.00, T:0.14
Consensus pattern (9 bp):
AAAAATAAA
Found at i:120354 original size:10 final size:8
Alignment explanation
Indices: 120333--120382 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 8
120323 TATATAAAAT
120333 AAAAATAA
1 AAAAATAA
120341 AAAAACTCAA
1 AAAAA-T-AA
120351 AAAAATTTAA
1 AAAAA--TAA
120361 AAAAATAAA
1 AAAAAT-AA
120370 AAAAATAA
1 AAAAATAA
120378 AAAAA
1 AAAAA
120383 GTTGCGGACG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
8 13 0.35
9 9 0.24
10 14 0.38
11 1 0.03
ACGTcount: A:0.82, C:0.04, G:0.00, T:0.14
Consensus pattern (8 bp):
AAAAATAA
Found at i:121418 original size:18 final size:18
Alignment explanation
Indices: 121383--121448 Score: 50
Period size: 18 Copynumber: 3.8 Consensus size: 18
121373 CAAGAAAGGC
*
121383 AATCGCAACAAACCGCAA
1 AATCGCAACAAACAGCAA
* *
121401 AATCTCAACAAATAGCAA
1 AATCGCAACAAACAGCAA
121419 AA-CAGCAAGCAAA-AG-AA
1 AATC-GCAA-CAAACAGCAA
*
121436 AAAC-CAACAAACA
1 AATCGCAACAAACA
121449 ACAGAAAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
15 4 0.10
16 4 0.10
17 5 0.12
18 23 0.57
19 4 0.10
ACGTcount: A:0.59, C:0.26, G:0.09, T:0.06
Consensus pattern (18 bp):
AATCGCAACAAACAGCAA
Found at i:121687 original size:36 final size:36
Alignment explanation
Indices: 121647--121735 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 36
121637 GTAGTTAAAA
121647 TGTTTCATACATGATGTTATTGCTATGACGTTTATG
1 TGTTTCATACATGATGTTATTGCTATGACGTTTATG
* *
121683 TGTTTCATACATGATGTTATTGCTATGTCTTTTATG
1 TGTTTCATACATGATGTTATTGCTATGACGTTTATG
*
121719 TGTTTCATGCATGATGT
1 TGTTTCATACATGATGT
121736 CACCGTAGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.20, C:0.11, G:0.19, T:0.49
Consensus pattern (36 bp):
TGTTTCATACATGATGTTATTGCTATGACGTTTATG
Found at i:121928 original size:131 final size:131
Alignment explanation
Indices: 121683--122048 Score: 617
Period size: 131 Copynumber: 2.8 Consensus size: 131
121673 GACGTTTATG
* * *
121683 TGTTTCATACATGATGTTATTGCTATGTCTTTTATGTGTTTCATGCATGATGTCACCGTAGTTCC
1 TGTTTCATACATGATGTTATTGCTATGACTTTTATGTGTTTCATGCATGATGTTACCATAGTTCC
* * * * *
121748 CTTTCTCAAGTTTCATCGTATGTGTTTG-AGAACATTTTGATGCTGGAATCTTTTAGGTAGTTAA
66 CTTTGTCAGGTTTCATCGTATGTGTTTGTA-AACAGTTTGATGCTAGAATCTTTTAGGTAATTAA
121812 AA
130 AA
121814 TGTTTCATACATGATGTTATTGCTATGACTTTTATGTGTTTCATGCATGATGTTACCATAGTTCC
1 TGTTTCATACATGATGTTATTGCTATGACTTTTATGTGTTTCATGCATGATGTTACCATAGTTCC
*
121879 CTTTGTCAGGTTTCATCGTATGTGTTTGTAAACAGTTTGGTGCTAGAATCTTTTAGGTAATTAAA
66 CTTTGTCAGGTTTCATCGTATGTGTTTGTAAACAGTTTGATGCTAGAATCTTTTAGGTAATTAAA
121944 A
131 A
121945 TGTTTCATACATGATGTTATTGCTATGACTTTTATGTGTTTCATGCATGATGTTACCATAGTTCC
1 TGTTTCATACATGATGTTATTGCTATGACTTTTATGTGTTTCATGCATGATGTTACCATAGTTCC
* *
122010 CTTTGTTAGGTTTCATCGTAAGTGTTTGTAAACAGTTTG
66 CTTTGTCAGGTTTCATCGTATGTGTTTGTAAACAGTTTG
122049 TAAAATGTGA
Statistics
Matches: 223, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
131 222 1.00
132 1 0.00
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (131 bp):
TGTTTCATACATGATGTTATTGCTATGACTTTTATGTGTTTCATGCATGATGTTACCATAGTTCC
CTTTGTCAGGTTTCATCGTATGTGTTTGTAAACAGTTTGATGCTAGAATCTTTTAGGTAATTAAA
A
Found at i:123196 original size:154 final size:153
Alignment explanation
Indices: 122914--123448 Score: 514
Period size: 155 Copynumber: 3.5 Consensus size: 153
122904 CTATTTATCA
* * * * *
122914 TTTTAAGTCTTTTAGGGGTATCGCGTACTTTTATGTCGAAGATATCCCCT-AGGGACATTTTCAT
1 TTTTAAGTCCTTTAGGGGTATCGAGCACTTCTATGTCGAAGATATCCCCTAAGGG-CATTTTCGT
* * * * **
122978 AATTTTTTAAAACTAAGTCCTAGGTCATCTTC-AGGTCTGCTTCTATACCGAAGGTGTACGTTTA
65 AATTTTTTAGAACTGAGTCCTAGGTCATC-ACGAGGTCTGCTTCTAT-GCGAAGGTGTAAATTTA
*
123042 GGATAGGTTCATCCCTTTTAAAATCT
128 GGATAGGTTCATCCATTTTAAAATCT
* * *
123068 TTTTAAAGTCCTTTA-GGGTATC-AGGCACTTCTATGTTGAAGAAATCTCCTAAGGGCATTTTCG
1 TTTT-AAGTCCTTTAGGGGTATCGA-GCACTTCTATGTCGAAGATATCCCCTAAGGGCATTTTCG
* * *
123131 TAATTTTTTAGAACCGAGTCTTAGGTCATCACGAGGTCCGCTTCTATGTCGAAGGTGTAAATTTA
64 TAATTTTTTAGAACTGAGTCCTAGGTCATCACGAGGTCTGCTTCTATG-CGAAGGTGTAAATTTA
* *
123196 GGATAGGTTCATCCTTTTTTAAATCCT
128 GGATAGGTTCATCCATTTTAAAAT-CT
* * * *
123223 TTTTAAGTCCTTTAGGGGTATCGAGCACTTCTATGTCGAA-AGTATCCCTTAGGGGTATTTTGGT
1 TTTTAAGTCCTTTAGGGGTATCGAGCACTTCTATGTCGAAGA-TATCCCCTAAGGGCATTTTCGT
* ** * * * *
123287 AATTTTTTAGAATTGAGTCCTAGGTTTTCACTG-GGTCTGTTTTTATGCAAAAGGTAG-ATATTT
65 AATTTTTTAGAACTGAGTCCTAGGTCATCAC-GAGGTCTGCTTCTATGC-GAAGGT-GTAAATTT
*
123350 AAGATAGGTTCATCCATTTTAAAATCCT
127 AGGATAGGTTCATCCATTTTAAAAT-CT
* * * * * ** *
123378 TTTCAAGTCTTTTAGGGGTATC-AGGTACATCTACGTTAAAGATATCCCCTAGGGGCTATTTT-G
1 TTTTAAGTCCTTTAGGGGTATCGA-GCACTTCTATGTCGAAGATATCCCCTAAGGGC-ATTTTCG
123441 T-ATTTTTT
64 TAATTTTTT
123449 CTTAAACTTA
Statistics
Matches: 318, Mismatches: 48, Indels: 30
0.80 0.12 0.08
Matches are distributed among these distances:
153 1 0.00
154 134 0.42
155 174 0.55
156 9 0.03
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (153 bp):
TTTTAAGTCCTTTAGGGGTATCGAGCACTTCTATGTCGAAGATATCCCCTAAGGGCATTTTCGTA
ATTTTTTAGAACTGAGTCCTAGGTCATCACGAGGTCTGCTTCTATGCGAAGGTGTAAATTTAGGA
TAGGTTCATCCATTTTAAAATCT
Found at i:127733 original size:20 final size:17
Alignment explanation
Indices: 127695--127730 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
127685 TGATAATATT
127695 ATGATTATGGAAACATC
1 ATGATTATGGAAACATC
127712 ATGATTATGGAAACATC
1 ATGATTATGGAAACATC
127729 AT
1 AT
127731 CATTCATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.31
Consensus pattern (17 bp):
ATGATTATGGAAACATC
Found at i:127998 original size:57 final size:59
Alignment explanation
Indices: 127917--128073 Score: 192
Period size: 59 Copynumber: 2.7 Consensus size: 59
127907 TGCATACTAA
* * * * * *
127917 CATTTCATGCGTTTTTATGTCATTTTGGTAATTTTTCATGACTTA-GGGA-TTTTATGT
1 CATTTCATGCATTTTAATGTCATTTTAGTAATTTTCCATGACTTATAGAATTTTTATGT
* * *
127974 CATTTCATGCATTTTAATGACATTTTAGTCATTTTCCATGATTTATAGAATTTTTATGT
1 CATTTCATGCATTTTAATGTCATTTTAGTAATTTTCCATGACTTATAGAATTTTTATGT
* * *
128033 CACTTCATGCATTTTAATGTCATTTTAATAAATTTCCATGA
1 CATTTCATGCATTTTAATGTCATTTTAGTAATTTTCCATGA
128074 TTTAGGATCA
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
57 38 0.45
58 2 0.02
59 44 0.52
ACGTcount: A:0.25, C:0.13, G:0.12, T:0.50
Consensus pattern (59 bp):
CATTTCATGCATTTTAATGTCATTTTAGTAATTTTCCATGACTTATAGAATTTTTATGT
Found at i:127999 original size:30 final size:30
Alignment explanation
Indices: 127965--128059 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 30
127955 TGACTTAGGG
127965 ATTTTATGTCATTTCATGCATTTTAATGAC
1 ATTTTATGTCATTTCATGCATTTTAATGAC
127995 ATTTTA-GTCATTTTCCATG-A-TTT-ATAGA-
1 ATTTTATGTCA-TTT-CATGCATTTTAAT-GAC
* *
128023 ATTTTTATGTCACTTCATGCATTTTAATGTC
1 A-TTTTATGTCATTTCATGCATTTTAATGAC
128054 ATTTTA
1 ATTTTA
128060 ATAAATTTCC
Statistics
Matches: 54, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
28 7 0.13
29 17 0.31
30 23 0.43
31 7 0.13
ACGTcount: A:0.26, C:0.13, G:0.09, T:0.52
Consensus pattern (30 bp):
ATTTTATGTCATTTCATGCATTTTAATGAC
Found at i:128317 original size:58 final size:57
Alignment explanation
Indices: 128235--128394 Score: 185
Period size: 58 Copynumber: 2.8 Consensus size: 57
128225 TATTTAAGTT
* * * * *
128235 ATTTCCATGCATTAAGGGACTATTATGTAATTGCATACATTTTAAGGCCATTTTAGTC
1 ATTTTCATGAATT-AGGGATTATTATGTAATTTCATACATTTTAAGGCCATTGTAGTC
* * *
128293 ATTTTTCATGAATTAGGGATTATTATGCAATTTCATATATTTTTAGGCCATTGTAGTC
1 A-TTTTCATGAATTAGGGATTATTATGTAATTTCATACATTTTAAGGCCATTGTAGTC
* * * *
128351 ATTTTCTATGATTTAAGAATTATTATGTAATTTCATGCATTTTA
1 ATTTTC-ATGAATTAGGGATTATTATGTAATTTCATACATTTTA
128395 GCACCGTTCT
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
57 5 0.06
58 70 0.82
59 10 0.12
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (57 bp):
ATTTTCATGAATTAGGGATTATTATGTAATTTCATACATTTTAAGGCCATTGTAGTC
Found at i:132263 original size:32 final size:32
Alignment explanation
Indices: 132227--132291 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
132217 AACTTAATCA
*
132227 CCATGAAAAAACTAGTATTAATCCCTAAGAGT
1 CCATGAAAAAACTAGTATTAACCCCTAAGAGT
*
132259 CCATGAAAAACCTAGTATTAACCCCTAAGAGT
1 CCATGAAAAAACTAGTATTAACCCCTAAGAGT
132291 C
1 C
132292 AACAACTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (32 bp):
CCATGAAAAAACTAGTATTAACCCCTAAGAGT
Found at i:135418 original size:64 final size:65
Alignment explanation
Indices: 135342--135539 Score: 197
Period size: 65 Copynumber: 3.1 Consensus size: 65
135332 ACTCCAAGTC
* *
135342 TTTTCTTTTTAAGTCAAATCTACTTTCCTAGAAGTAGGTCAAGTCTTTA-AAT-GAAGTTTAGAT
1 TTTTCTTTTTAAGTCAAATCTACTTTCCTAGAAGTAGGTCAAG-C-CTAGAATCGAAGTCTAGAT
135405 AT
64 AT
* * * * * *
135407 TTTTC-TTTTAAGTCAAATCTACTATCCTAGAAATAGGTAAAGCCTAGGATCGAAGTCTAGGTCT
1 TTTTCTTTTTAAGTCAAATCTACTTTCCTAGAAGTAGGTCAAGCCTAGAATCGAAGTCTAGATAT
* * * * ** * *
135471 TTTTCTTTTTAAATTAAATTTGCTTTCCTAGAAGTAGGTCGTGCCTAAAAAT-GAAGTCTAGGTA
1 TTTTCTTTTTAAGTCAAATCTACTTTCCTAGAAGTAGGTCAAGCCT-AGAATCGAAGTCTAGATA
135535 T
65 T
135536 TTTT
1 TTTT
135540 TGTTTCAAGG
Statistics
Matches: 109, Mismatches: 20, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
62 2 0.02
63 3 0.03
64 49 0.45
65 52 0.48
66 3 0.03
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (65 bp):
TTTTCTTTTTAAGTCAAATCTACTTTCCTAGAAGTAGGTCAAGCCTAGAATCGAAGTCTAGATAT
Found at i:135509 original size:65 final size:65
Alignment explanation
Indices: 135342--135509 Score: 189
Period size: 64 Copynumber: 2.6 Consensus size: 65
135332 ACTCCAAGTC
* * *
135342 TTTTCTTTTTAAGTCAAATCTACTTTCCTAGAAGTAGGTCAAGTCTTTAAATGAAGTTTAGATAT
1 TTTTCTTTTTAAGTCAAATCTACTTTCCTAGAAGTAGGTAAAGTCTCTAAATGAAGTCTAGATAT
* * * *
135407 TTTTC-TTTTAAGTCAAATCTACTATCCTAGAAATAGGTAAAG-C-CTAGGATCGAAGTCTAGGT
1 TTTTCTTTTTAAGTCAAATCTACTTTCCTAGAAGTAGGTAAAGTCTCTA-AAT-GAAGTCTAGAT
*
135469 CT
64 AT
* * * *
135471 TTTTCTTTTTAAATTAAATTTGCTTTCCTAGAAGTAGGT
1 TTTTCTTTTTAAGTCAAATCTACTTTCCTAGAAGTAGGT
135510 CGTGCCTAAA
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
62 2 0.02
63 3 0.03
64 49 0.57
65 32 0.37
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.42
Consensus pattern (65 bp):
TTTTCTTTTTAAGTCAAATCTACTTTCCTAGAAGTAGGTAAAGTCTCTAAATGAAGTCTAGATAT
Found at i:135523 original size:129 final size:127
Alignment explanation
Indices: 135285--135539 Score: 296
Period size: 129 Copynumber: 2.0 Consensus size: 127
135275 TTGAGTCATT
* * * * * *
135285 TTTTAAGCTAAATCTACTTTCTTATAATAGGTTAAGCTTAGGATTGAACTCCAAGTCTTTTCTTT
1 TTTTAAGCTAAATCTACTATCCTAAAATAGGTAAAGCCTAGGATCGAACTCCAAGTCTTTTCTTT
* * ** *
135350 TTAAGTCAAATCTACTTTCCTAGAAGTAGGTCAAGTCTTTAAATGAAGTTTAGATATTTTTC
66 TTAAATCAAATCTACTTTCCTAGAAGTAGGTCAAGCCTAAAAATGAAGTCTAGATATTTTTC
* * *
135412 TTTTAAG-TCAAATCTACTATCCTAGAAATAGGTAAAGCCTAGGATCGAAGTCTAGGTCTTTTTC
1 TTTTAAGCT-AAATCTACTATCCTA-AAATAGGTAAAGCCTAGGATCGAACTCCAAGTC-TTTTC
* * * ** *
135476 TTTTTAAATTAAATTTGCTTTCCTAGAAGTAGGTCGTGCCTAAAAATGAAGTCTAGGTATTTTT
63 TTTTTAAATCAAATCTACTTTCCTAGAAGTAGGTCAAGCCTAAAAATGAAGTCTAGATATTTTT
135540 TGTTTCAAGG
Statistics
Matches: 105, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
126 1 0.01
127 20 0.19
128 26 0.25
129 58 0.55
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.40
Consensus pattern (127 bp):
TTTTAAGCTAAATCTACTATCCTAAAATAGGTAAAGCCTAGGATCGAACTCCAAGTCTTTTCTTT
TTAAATCAAATCTACTTTCCTAGAAGTAGGTCAAGCCTAAAAATGAAGTCTAGATATTTTTC
Found at i:137022 original size:31 final size:31
Alignment explanation
Indices: 136987--137054 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
136977 TGATTAATCA
136987 ATTTTTATCGA-TATTTAATTATAATTCCCTC
1 ATTTTTAT-GAGTATTTAATTATAATTCCCTC
* * *
137018 ATTTTAATTAGTATTTAGTTATAATTCCCTC
1 ATTTTTATGAGTATTTAATTATAATTCCCTC
137049 ATTTTT
1 ATTTTT
137055 TTAATCATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 1 0.03
31 31 0.97
ACGTcount: A:0.28, C:0.13, G:0.04, T:0.54
Consensus pattern (31 bp):
ATTTTTATGAGTATTTAATTATAATTCCCTC
Found at i:141472 original size:10 final size:10
Alignment explanation
Indices: 141456--141485 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
141446 GTTTGGAAGG
141456 AAAAAAAAAT
1 AAAAAAAAAT
*
141466 TAAAAAAAAT
1 AAAAAAAAAT
141476 AAAAAAAAAT
1 AAAAAAAAAT
141486 CACATTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:141609 original size:13 final size:13
Alignment explanation
Indices: 141591--141615 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
141581 ACATAAGTGT
141591 TGTATCGATACAA
1 TGTATCGATACAA
141604 TGTATCGATACA
1 TGTATCGATACA
141616 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:141628 original size:19 final size:18
Alignment explanation
Indices: 141572--141634 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
141562 ATTCGGTAAA
*
141572 TGTATCAATACATAAGTGT
1 TGTATCGATACATAAGT-T
141591 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
141604 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
141623 TGTATCGATACA
1 TGTATCGATACA
141635 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
15 2 0.05
17 2 0.05
19 22 0.59
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:141642 original size:32 final size:32
Alignment explanation
Indices: 141570--141642 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
141560 ACATTCGGTA
*
141570 AATGTATCAATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
141602 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
141634 AATGTATCG
1 AATGTATCG
141643 CTAGGAAGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:141704 original size:13 final size:13
Alignment explanation
Indices: 141686--141711 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
141676 CATTTTTCTG
141686 TGTATCGATACAT
1 TGTATCGATACAT
141699 TGTATCGATACAT
1 TGTATCGATACAT
141712 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:141729 original size:34 final size:33
Alignment explanation
Indices: 141668--141732 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 33
141658 CAAGGAAATT
*
141668 TATCGATACATTTTTCTGTGTATCGATACATTG
1 TATCGATACATTATTCTGTGTATCGATACATTG
*
141701 TATCGATACATCTATTCTTTGTATCGATACAT
1 TATCGATACAT-TATTCTGTGTATCGATACAT
141733 CTAGGAAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 11 0.38
34 18 0.62
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.45
Consensus pattern (33 bp):
TATCGATACATTATTCTGTGTATCGATACATTG
Found at i:144135 original size:52 final size:52
Alignment explanation
Indices: 144068--144368 Score: 182
Period size: 52 Copynumber: 5.8 Consensus size: 52
144058 TCAATTGTTC
* *
144068 ATAATCAGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTTCCT
1 ATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCCT
* * * * * * *
144120 TTAATCGGGGGTACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTC-
1 ATAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACTAATTTTCCT
* * * * ***** ** * * * *
144172 ACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATCCTCCAACCCCGTTACCT
1 ATAATCGGGGATACTCCAACCCCG--ATTTTATTTTCAAAACACTAA----TTTTCCT
* * * * * *
144230 CTAA--GGGGATACTCCAACCCC-AGCTTTATTTCCAAAATATTGA-TTTCC-
1 ATAATCGGGGATACTCCAACCCCGA-TTTTATTTTCAAAACACTAATTTTCCT
* *
144278 ACAATGGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCCT
1 ATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCCT
* *
144330 TTAATCGAGGATACTCCAACCCCGATTTTATTTTCAAAA
1 ATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAA
144369 AACATCAATT
Statistics
Matches: 177, Mismatches: 58, Indels: 28
0.67 0.22 0.11
Matches are distributed among these distances:
48 2 0.01
49 4 0.02
50 32 0.18
51 6 0.03
52 82 0.46
53 19 0.11
54 12 0.07
56 15 0.08
57 3 0.02
58 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (52 bp):
ATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCCT
Found at i:144211 original size:28 final size:28
Alignment explanation
Indices: 144175--144250 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 28
144165 ATTTTTCACA
* * **
144175 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
*
144203 ATCGGGGATCCTCCAACCCCGTTACCTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
*
144231 -TAAGGGGATACTCCAACCCC
1 AT-CGGGGATACTCCAACCCC
144251 AGCTTTATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 1 0.03
28 39 0.98
ACGTcount: A:0.24, C:0.36, G:0.17, T:0.24
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACCTC
Found at i:144308 original size:50 final size:52
Alignment explanation
Indices: 144234--144403 Score: 161
Period size: 52 Copynumber: 3.3 Consensus size: 52
144224 TTACCTCTAA
* * * * * *
144234 GGGGATACTCCAACCCC-AGCTTTATTTCCAAAATATTGA-TTTCC-ACAATG
1 GGGGATACTCCAACCCCGA-TTTTATTTTCAAAACACTAATTTTCCTACAATC
**
144284 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCCTACAATC
* * *
144336 GAGGATACTCCAACCCCGATTTTATTTTCAAAAAACATCAATTTT--TAACAACC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACAC-T-AATTTTCCT-ACAATC
*
144389 GAGGATACTCCAACC
1 GGGGATACTCCAACC
144404 TCGTTATTTC
Statistics
Matches: 101, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
50 32 0.32
51 6 0.06
52 38 0.38
53 19 0.19
54 6 0.06
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.31
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCCTACAATC
Found at i:144454 original size:211 final size:211
Alignment explanation
Indices: 144075--144513 Score: 729
Period size: 211 Copynumber: 2.1 Consensus size: 211
144065 TTCATAATCA
* * *
144075 GGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTTCCTTTAATCGGGGGTACTCCAAC
1 GGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCCTTTAATCGAGGATACTCCAAC
* * *
144140 TCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCAT
66 CCCGATTTTATTTCCAAAAATACCAATTTTTAACAACCGAGGATACTCCAACCTCGTTATTTCAT
* *
144205 CGGGGATCCTCCAACCCCGTTACCTCTAAGGGGATACTCCAACCCCAGCTTTATTTCCAAAATAT
131 CGGGGATACTCCAACCCCGTTACCTCCAAGGGGATACTCCAACCCCAGCTTTATTTCCAAAATAT
144270 TGATTTC-CACAATGG
196 TGATTTCTCACAATGG
144285 GGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCCTTTAATCGAGGATACTCCAAC
1 GGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCCTTTAATCGAGGATACTCCAAC
*
144350 CCCGATTTTATTTTCAAAAA-ACATCAATTTTTAACAACCGAGGATACTCCAACCTCGTTATTTC
66 CCCGATTTTATTTCCAAAAATAC--CAATTTTTAACAACCGAGGATACTCCAACCTCGTTATTTC
* *
144414 ATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCTAGCTTTATTTCCAAAAT
129 ATCGGGGATACTCCAACCCCGTTACCTCCAAGGGGATACTCCAACCCCAGCTTTATTTCCAAAAT
* *
144479 ATTGATTTCTCATAATTG
194 ATTGATTTCTCACAATGG
144497 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
144514 TTATTTTCGA
Statistics
Matches: 213, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
209 2 0.01
210 80 0.38
211 108 0.51
212 23 0.11
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (211 bp):
GGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCCTTTAATCGAGGATACTCCAAC
CCCGATTTTATTTCCAAAAATACCAATTTTTAACAACCGAGGATACTCCAACCTCGTTATTTCAT
CGGGGATACTCCAACCCCGTTACCTCCAAGGGGATACTCCAACCCCAGCTTTATTTCCAAAATAT
TGATTTCTCACAATGG
Found at i:144511 original size:79 final size:78
Alignment explanation
Indices: 144417--144618 Score: 253
Period size: 79 Copynumber: 2.6 Consensus size: 78
144407 TTATTTCATC
** * *
144417 GGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCTAGCTTTATTTCCAAAAT-AT
1 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCGA-CTTTA-TTCCAAAATCAT
* * *
144481 TGATTTCTCATAATT
64 CGATTTCTCACAACT
* **
144496 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTATTCCCTAATCATC
1 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCCGACTTTATTCCAAAATCATC
*
144561 GATTTTTCACAACT
65 GATTTCTCACAACT
* *
144575 GGGGATACTCCAACCCCGTTATTTTCAAGGGGACACTCCAACCC
1 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCC
144619 CGTTACTATC
Statistics
Matches: 108, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
78 10 0.09
79 94 0.87
80 4 0.04
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (78 bp):
GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCGACTTTATTCCAAAATCATCG
ATTTCTCACAACT
Found at i:144528 original size:107 final size:105
Alignment explanation
Indices: 144146--144541 Score: 292
Period size: 107 Copynumber: 3.7 Consensus size: 105
144136 CAACTCCGAT
*** * * *
144146 TTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGA
1 TTTATTTCC-AAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTCA-CGGGGA
* **
144211 TCCTCCAACCCCGTTACCTCTAAGGGGATACTCCAACCCCAGC
64 TACTCCAACCCCGTTACCTCCGAGGGGATACTCCAA-CCCAGC
*
144254 TTTATTTCCAAAATATTGATTTC-CACAATGGGGGATACTCCAACCCCGATTTTATTTTCA----
1 TTTATTTCCAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCG---TTA-TTTCACGGG
* * * ** * * * *
144314 -AAACACTAATTTTCCTTTA-AT-CGA--GGATACTCCAACCCCGAT
62 GATACTCCAA--CCCCGTTACCTCCGAGGGGATACTCCAACCCAG-C
* * ** * * * * *
144356 TTTATTTTCAAAAAACATCAATTTTTAACAACCGAGGATACTCCAACCTCGTTATTTCATCGGGG
1 TTTA-TTTC-CAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTCA-CGGGG
144421 ATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCTAGC
63 ATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCC-AGC
* *
144465 TTTATTTCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCGTTATTTTCGA-GGGGA
1 TTTATTTCCAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCGTTA-TTTC-ACGGGGA
*
144529 TACTCCAATCCCG
64 TACTCCAACCCCG
144542 ATTTTATTCC
Statistics
Matches: 215, Mismatches: 50, Indels: 47
0.69 0.16 0.15
Matches are distributed among these distances:
101 9 0.04
102 18 0.08
103 4 0.02
104 16 0.07
105 26 0.12
106 28 0.13
107 69 0.32
108 17 0.08
109 22 0.10
110 6 0.03
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.31
Consensus pattern (105 bp):
TTTATTTCCAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTCACGGGGATA
CTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCAGC
Found at i:146577 original size:22 final size:19
Alignment explanation
Indices: 146537--146578 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
146527 TTTTCTCAGT
146537 TTAAAATTTTTAAAATTCA
1 TTAAAATTTTTAAAATTCA
146556 TTAAATATTTTTATTAAATTCA
1 TTAAA-ATTTTTA--AAATTCA
146578 T
1 T
146579 ATTAAATCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 7 0.35
22 8 0.40
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAAAATTTTTAAAATTCA
Found at i:146972 original size:14 final size:15
Alignment explanation
Indices: 146942--146980 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
146932 AATCAAATCA
*
146942 AATAAAAAAAGTAAT
1 AATAATAAAAGTAAT
146957 AATAATAAAA-TAAT
1 AATAATAAAAGTAAT
146971 AATAATAAAA
1 AATAATAAAA
146981 AAGGAAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 14 0.61
15 9 0.39
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
AATAATAAAAGTAAT
Found at i:148784 original size:56 final size:56
Alignment explanation
Indices: 148688--148846 Score: 142
Period size: 56 Copynumber: 2.8 Consensus size: 56
148678 AGCTTCAGTC
* * **
148688 AAAATTGGCACCCAAATGAGAAAGTCC-AAGAGTAATTAGTAGGTTTAACTCAAGTA
1 AAAATTGGCAACCAAATGAGAAA-ACCTAAGAGTAGCTAGTAGGTTTAACTCAAGTA
* * * * * * *
148744 AAAACTGGCAACCAAATGAGAAAACCTAATAGTAGCTAGTAAGCTTAGCTCTAGTT
1 AAAATTGGCAACCAAATGAGAAAACCTAAGAGTAGCTAGTAGGTTTAACTCAAGTA
* * * * *
148800 GAAATTGGCATCTAAAT-AAAAAATCCTAAGAGTAGCTCGTAGGTTTA
1 AAAATTGGCAACCAAATGAGAAAA-CCTAAGAGTAGCTAGTAGGTTTA
148847 GCTTTAATTG
Statistics
Matches: 81, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
55 7 0.09
56 74 0.91
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.25
Consensus pattern (56 bp):
AAAATTGGCAACCAAATGAGAAAACCTAAGAGTAGCTAGTAGGTTTAACTCAAGTA
Found at i:148848 original size:56 final size:55
Alignment explanation
Indices: 148749--148874 Score: 144
Period size: 56 Copynumber: 2.3 Consensus size: 55
148739 AAGTAAAAAC
* * * *
148749 TGGCAACCAAATGAGAAAACCTAATAGTAGCTAGTAAGCTTAGCTCTAGTTGAAAT
1 TGGCACCCAAAT-AAAAAACCTAAGAGTAGCTAGTAAGCTTAGCTCTAATTGAAAT
* * * * * *
148805 TGGCATCTAAATAAAAAATCCTAAGAGTAGCTCGTAGGTTTAGCTTTAATTGAAAT
1 TGGCACCCAAATAAAAAA-CCTAAGAGTAGCTAGTAAGCTTAGCTCTAATTGAAAT
148861 TGGCACCCAAATAA
1 TGGCACCCAAATAA
148875 GAAAGCATAG
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
55 5 0.09
56 53 0.91
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (55 bp):
TGGCACCCAAATAAAAAACCTAAGAGTAGCTAGTAAGCTTAGCTCTAATTGAAAT
Found at i:148973 original size:56 final size:56
Alignment explanation
Indices: 148908--149031 Score: 126
Period size: 56 Copynumber: 2.2 Consensus size: 56
148898 GTTTATATTG
*
148908 AGTTAAAATTAGAACCCAAAA-GAGAAAGCCCAAAAATAACT-AGTAAGTTAAGCTTC
1 AGTTGAAATTAGAACCCAAAAGGA-AAAGCCCAAAAATAACTAAG-AAGTTAAGCTTC
* * * * * * * * *
148964 AGTTGAAATTGGCATCCAAATGGAAAAGCCTAAAAGTAACTAAGAGGTTTAGCTTT
1 AGTTGAAATTAGAACCCAAAAGGAAAAGCCCAAAAATAACTAAGAAGTTAAGCTTC
149020 AGTTGAAATTAG
1 AGTTGAAATTAG
149032 TCCAAGAGTA
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
56 51 0.93
57 4 0.07
ACGTcount: A:0.44, C:0.13, G:0.19, T:0.24
Consensus pattern (56 bp):
AGTTGAAATTAGAACCCAAAAGGAAAAGCCCAAAAATAACTAAGAAGTTAAGCTTC
Found at i:150283 original size:16 final size:16
Alignment explanation
Indices: 150262--150297 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
150252 GGAAAGCTTC
*
150262 TAAAAAACCAAAAAAA
1 TAAAAAACAAAAAAAA
*
150278 TAAAAAATAAAAAAAA
1 TAAAAAACAAAAAAAA
150294 TAAA
1 TAAA
150298 GGAGAAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (16 bp):
TAAAAAACAAAAAAAA
Found at i:151495 original size:13 final size:13
Alignment explanation
Indices: 151477--151501 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
151467 ACAATGAACA
151477 TGTATCGATACAT
1 TGTATCGATACAT
151490 TGTATCGATACA
1 TGTATCGATACA
151502 ACGTATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:151518 original size:33 final size:32
Alignment explanation
Indices: 151458--151522 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
151448 ACCAGTTTCA
*
151458 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAACGAACATGTATCGATACAT
151490 TGTATCGATACAACGTATA-ATGTATCGATACAT
1 TGTATCGATACAACG-A-ACATGTATCGATACAT
151523 CTGGGTGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (32 bp):
TGTATCGATACAACGAACATGTATCGATACAT
Found at i:152141 original size:22 final size:24
Alignment explanation
Indices: 152089--152145 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 24
152079 AAATTTCCCT
* *
152089 TTGATAAAAGAATTTCTCCCTCGG
1 TTGATAAAAGATTTTCTCCCTCGC
152113 TT-A-AAAAGATTTTCTCCC-C-C
1 TTGATAAAAGATTTTCTCCCTCGC
152133 TTGATAAAA-ATTT
1 TTGATAAAAGATTT
152146 ATTTTCAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 2 0.07
21 6 0.21
22 18 0.62
23 1 0.03
24 2 0.07
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (24 bp):
TTGATAAAAGATTTTCTCCCTCGC
Found at i:155728 original size:19 final size:19
Alignment explanation
Indices: 155704--155771 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
155694 AATTCAACAA
155704 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
155723 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
155738 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
155755 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
155772 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:155743 original size:13 final size:13
Alignment explanation
Indices: 155725--155749 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
155715 ACATAAGTTT
155725 TGTATCGATACAA
1 TGTATCGATACAA
155738 TGTATCGATACA
1 TGTATCGATACA
155750 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:155747 original size:32 final size:32
Alignment explanation
Indices: 155706--155768 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
155696 TTCAACAATT
*
155706 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
155738 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
155769 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:155829 original size:13 final size:13
Alignment explanation
Indices: 155811--155836 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
155801 CATTTTTCTG
155811 TGTATCGATACAT
1 TGTATCGATACAT
155824 TGTATCGATACAT
1 TGTATCGATACAT
155837 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:155833 original size:33 final size:33
Alignment explanation
Indices: 155791--155857 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
155781 GCCAAGGAAA
***
155791 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
155824 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
155857 T
1 T
155858 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:159903 original size:28 final size:27
Alignment explanation
Indices: 159836--159906 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
159826 CTTCACAATC
* *
159836 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
159863 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
159891 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
159907 TGACTTTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:159951 original size:51 final size:50
Alignment explanation
Indices: 159891--160061 Score: 189
Period size: 51 Copynumber: 3.3 Consensus size: 50
159881 TTATTTCTGA
* * *
159891 GGGGATACTCCAACCCTGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCC-GATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
159942 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAA-CCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
* *
159995 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCATAATC
1 GGGGATACTCCAA-CCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
160047 GAGGATACTCCAACC
1 GGGGATACTCCAACC
160062 TCGTTATTTC
Statistics
Matches: 98, Mismatches: 18, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
51 33 0.34
52 22 0.22
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (50 bp):
GGGGATACTCCAACCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:160053 original size:105 final size:104
Alignment explanation
Indices: 159727--160061 Score: 263
Period size: 105 Copynumber: 3.2 Consensus size: 104
159717 AATTCTCCAC
* * * * ** *
159727 AATCGAGGATATTCCAACTCCGATTTTACTTTCAAAACATTAATTT-T-CTATAATCGGGGATAC
1 AATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTCCTTTAATCGGGGATAC
* *
159790 TCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCAC
66 TCCAA-TCCGATTTTATTTCC-AAAAATACCAATTT-TTCAT
* * * ** * * * * * *
159832 AATCGGGGACACTCCAACCCC-G-TTAATCATCGGGGATACTCCAA---CCCCGTTATTTCTGAG
1 AATCGAGGATACTCCAACCCCGGTTTTATTTTC---AAAACACCAATTTCTCCTTTA-ATC---G
* * * * *
159892 GGGATACTCCAACCCTGACTTTATTTTC-AAAATATCGATTTTTCAT
59 GGGATACTCCAATCC-GATTTTATTTCCAAAAATACCAATTTTTCAT
* *
159938 AATCGGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATCGGGGATAC
1 AATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTCCTTTAATCGGGGATAC
160003 TCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCAT
66 TCCAA-TCCGATTTTATTTCCAAAAATACCAATTTTTCAT
160043 AATCGAGGATACTCCAACC
1 AATCGAGGATACTCCAACC
160062 TCGTTATTTC
Statistics
Matches: 171, Mismatches: 42, Indels: 34
0.69 0.17 0.14
Matches are distributed among these distances:
103 5 0.03
104 23 0.13
105 62 0.36
106 31 0.18
107 13 0.08
108 14 0.08
109 23 0.13
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (104 bp):
AATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTCCTTTAATCGGGGATAC
TCCAATCCGATTTTATTTCCAAAAATACCAATTTTTCAT
Found at i:160080 original size:28 final size:28
Alignment explanation
Indices: 160044--160125 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
160034 ATTTTTCATA
*
160044 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
160072 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
160100 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
160126 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:166709 original size:1 final size:1
Alignment explanation
Indices: 166699--166794 Score: 75
Period size: 1 Copynumber: 96.0 Consensus size: 1
166689 TGGCAATTGG
* * * ** * * * **
166699 AAAAAGAAAAAAACAAAACAAAAAAAAGGAAAAAGAAAAAAAAAAAACAAAACAAAAAAAAGGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
166764 AAAGAAAAAAAAAAAAACAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
166795 GTGAAGATTT
Statistics
Matches: 73, Mismatches: 22, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 73 1.00
ACGTcount: A:0.86, C:0.06, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:166744 original size:35 final size:35
Alignment explanation
Indices: 166698--166795 Score: 180
Period size: 34 Copynumber: 2.8 Consensus size: 35
166688 ATGGCAATTG
*
166698 GAAAAAGAAAAAAACAAAACAAAAAAAAGGAAAAA
1 GAAAAAAAAAAAAACAAAACAAAAAAAAGGAAAAA
166733 G-AAAAAAAAAAAACAAAACAAAAAAAAGGAAAAA
1 GAAAAAAAAAAAAACAAAACAAAAAAAAGGAAAAA
166767 GAAAAAAAAAAAAACAAAACAAAAAAAAG
1 GAAAAAAAAAAAAACAAAACAAAAAAAAG
166796 TGAAGATTTG
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
34 33 0.54
35 28 0.46
ACGTcount: A:0.85, C:0.06, G:0.09, T:0.00
Consensus pattern (35 bp):
GAAAAAAAAAAAAACAAAACAAAAAAAAGGAAAAA
Found at i:166748 original size:34 final size:34
Alignment explanation
Indices: 166698--166795 Score: 178
Period size: 35 Copynumber: 2.8 Consensus size: 34
166688 ATGGCAATTG
166698 GAAAAAGAAAAAAACAAAACAAAAAAAAGGAAAAA
1 GAAAAA-AAAAAAACAAAACAAAAAAAAGGAAAAA
166733 GAAAAAAAAAAAACAAAACAAAAAAAAGGAAAAA
1 GAAAAAAAAAAAACAAAACAAAAAAAAGGAAAAA
166767 GAAAAAAAAAAAAACAAAACAAAAAAAAG
1 G-AAAAAAAAAAAACAAAACAAAAAAAAG
166796 TGAAGATTTG
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
34 29 0.47
35 33 0.53
ACGTcount: A:0.85, C:0.06, G:0.09, T:0.00
Consensus pattern (34 bp):
GAAAAAAAAAAAACAAAACAAAAAAAAGGAAAAA
Found at i:170549 original size:28 final size:27
Alignment explanation
Indices: 170482--170552 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
170472 CTTCACAATC
* *
170482 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
170509 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
170537 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
170553 TGACTTTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Done.