Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold141
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: 2772588
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 118404 characters in sequence are not A, C, G, or T
File 1 of 18
Found at i:8521 original size:136 final size:136
Alignment explanation
Indices: 8270--8527 Score: 378
Period size: 136 Copynumber: 1.9 Consensus size: 136
8260 TCAGGATTAA
* * *
8270 AGTATCCCCGATTATGAAAAATTGATGTTTTAGAAAATAAACCGAGGTTGGAGTATCCCCTCGGA
1 AGTATCCCCGATTATGAAAAATTAATATTTTAGAAAATAAACCGAGGTTGGAGTATCCCCTCGAA
* ** *
8335 AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAATAAAACCGGATCACCGG
66 AATAACGGGGTTGGAGTACCCCCGATTATGAAAAATTAATATTTTGAATAAAACCGGATCACCGG
8400 GGTTGG
131 GGTTGG
* *
8406 AGTATCCCCGATTGTGAAAAATTAATATTTTAG-AGATAGAACCG-GGTTGGAGTATCCCCTCGA
1 AGTATCCCCGATTATGAAAAATTAATATTTTAGAAAATA-AACCGAGGTTGGAGTATCCCCTCGA
*
8469 AAAT-ACGGGGTTGGAGTACCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGG
65 AAATAACGGGGTTGGAGTACCCCCGATTATGAAAAATTAATATTTT-G-AATAAAACCGG
8528 GTTGGAGTAT
Statistics
Matches: 109, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
134 36 0.33
135 27 0.25
136 46 0.42
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (136 bp):
AGTATCCCCGATTATGAAAAATTAATATTTTAGAAAATAAACCGAGGTTGGAGTATCCCCTCGAA
AATAACGGGGTTGGAGTACCCCCGATTATGAAAAATTAATATTTTGAATAAAACCGGATCACCGG
GGTTGG
Found at i:8526 original size:77 final size:77
Alignment explanation
Indices: 8397--8545 Score: 271
Period size: 77 Copynumber: 1.9 Consensus size: 77
8387 ACCGGATCAC
* * *
8397 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAGATAGAACCGGGTTGGAGTATC
1 CGGGGTTGGAGTACCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGTTGGAGTATC
8462 CCCTCGAAAATA
66 CCCTCGAAAATA
8474 CGGGGTTGGAGTACCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGTTGGAGTATC
1 CGGGGTTGGAGTACCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGTTGGAGTATC
8539 CCCTCGA
66 CCCTCGA
8546 TTAAAGGAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 69 1.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.27
Consensus pattern (77 bp):
CGGGGTTGGAGTACCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGTTGGAGTATC
CCCTCGAAAATA
Found at i:10170 original size:49 final size:50
Alignment explanation
Indices: 10107--10368 Score: 413
Period size: 50 Copynumber: 5.3 Consensus size: 50
10097 GCTTTTTTCA
10107 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTT-TGC
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
* * * * *
10156 TTTCCCATGAATGCCTCCGCATGTTTTGTCT-CGATTGCAATTTTTGTGT
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
10205 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGTC
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATG-C
* * *
10256 TTTCCCATGCATGCCTC-CCATGTTTTGTCTCCAATTGCAATTTTTGTGT
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
*
10305 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCCATTGCAATTTTTATGC
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
10355 TTTCCCATGCATGC
1 TTTCCCATGCATGC
10369 ATTTTCTATT
Statistics
Matches: 193, Mismatches: 16, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
48 13 0.07
49 77 0.40
50 86 0.45
51 17 0.09
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.44
Consensus pattern (50 bp):
TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
Found at i:10316 original size:100 final size:99
Alignment explanation
Indices: 10107--10368 Score: 465
Period size: 100 Copynumber: 2.6 Consensus size: 99
10097 GCTTTTTTCA
*
10107 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTT-TGCTTTCCCATGAATGCC
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGCTTTCCCATGCATGCC
*
10171 TCCGCATGTTTTGTCTCGATTGCAATTTTTGTGT
66 TCCGCATGTTTTGTCTCAATTGCAATTTTTGTGT
10205 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGTCTTTCCCATGCATGC
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATG-CTTTCCCATGCATGC
10270 CTCC-CATGTTTTGTCTCCAATTGCAATTTTTGTGT
65 CTCCGCATGTTTTGTCT-CAATTGCAATTTTTGTGT
*
10305 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCCATTGCAATTTTTATGCTTTCCCATGCATGC
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGCTTTCCCATGCATGC
10369 ATTTTCTATT
Statistics
Matches: 158, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
98 46 0.29
99 29 0.18
100 83 0.53
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.44
Consensus pattern (99 bp):
TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGCTTTCCCATGCATGCC
TCCGCATGTTTTGTCTCAATTGCAATTTTTGTGT
Found at i:11978 original size:31 final size:31
Alignment explanation
Indices: 11873--11981 Score: 132
Period size: 31 Copynumber: 3.5 Consensus size: 31
11863 GGGTTGGAAC
*
11873 AAAACCACTATTCTTAT-TCGGTGGAACGGCAA
1 AAAACCACTATTCTTATCT-GGTGGCACGGC-A
* * *
11905 AAAACCACTATTTTTTTC-GGTGACACGGCA
1 AAAACCACTATTCTTATCTGGTGGCACGGCA
*
11935 AAAACCGCTATTCTTATCTGGTGGCACGGCA
1 AAAACCACTATTCTTATCTGGTGGCACGGCA
*
11966 AAAATCACTATTCTTA
1 AAAACCACTATTCTTA
11982 ACCAGTGGCA
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
30 16 0.25
31 34 0.52
32 15 0.23
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (31 bp):
AAAACCACTATTCTTATCTGGTGGCACGGCA
Found at i:15288 original size:11 final size:11
Alignment explanation
Indices: 15272--15311 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
15262 ATAATTATAT
15272 TATATTTTAAA
1 TATATTTTAAA
15283 TATA-TTTAAA
1 TATATTTTAAA
*
15293 TAT-TTATAAA
1 TATATTTTAAA
15303 T-TATTTTAA
1 TATATTTTAA
15312 TACTTTGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 1 0.04
10 20 0.80
11 4 0.16
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TATATTTTAAA
Found at i:15297 original size:19 final size:19
Alignment explanation
Indices: 15273--15313 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
15263 TAATTATATT
15273 ATATTT-TAAATATATTTAA
1 ATATTTATAAAT-TATTTAA
*
15292 ATATTTATAAATTATTTTA
1 ATATTTATAAATTATTTAA
15311 ATA
1 ATA
15314 CTTTGGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATTTATAAATTATTTAA
Found at i:16593 original size:1 final size:1
Alignment explanation
Indices: 16587--16707 Score: 188
Period size: 1 Copynumber: 121.0 Consensus size: 1
16577 TGGATAACCC
* * *
16587 AAAAAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAAAACAAACAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
16652 AAACAAAAAAAAAAAACAAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
16708 CGAGTTTAGT
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 108 1.00
ACGTcount: A:0.95, C:0.05, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:17766 original size:1 final size:1
Alignment explanation
Indices: 17728--17754 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
17718 TCATTTACTA
17728 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
17755 AATTTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:18839 original size:17 final size:17
Alignment explanation
Indices: 18819--18860 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
18809 TAGTAATATT
18819 TATTAAATATTTAAATA
1 TATTAAATATTTAAATA
*
18836 TATTAAATATTTAAATT
1 TATTAAATATTTAAATA
18853 TATTAAAT
1 TATTAAAT
18861 CAAGTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTAAATATTTAAATA
Found at i:18843 original size:9 final size:9
Alignment explanation
Indices: 18819--18860 Score: 61
Period size: 8 Copynumber: 4.9 Consensus size: 9
18809 TAGTAATATT
18819 TATTAAATA
1 TATTAAATA
18828 T-TTAAATA
1 TATTAAATA
18836 TATTAAATA
1 TATTAAATA
*
18845 T-TTAAATT
1 TATTAAATA
18853 TATTAAAT
1 TATTAAAT
18861 CAAGTTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 15 0.50
9 15 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
TATTAAATA
Found at i:19608 original size:13 final size:13
Alignment explanation
Indices: 19590--19662 Score: 57
Period size: 13 Copynumber: 5.8 Consensus size: 13
19580 TAATAATTTT
*
19590 AAATATGATATAA
1 AAATATAATATAA
19603 AAATATAATATAA
1 AAATATAATATAA
* **
19616 ATAAAAT-ATATTT
1 A-AATATAATATAA
19629 AAA-ATAA-AT-A
1 AAATATAATATAA
19639 AAA-ATAATATAA
1 AAATATAATATAA
19651 TAAATATAATAT
1 -AAATATAATAT
19663 TATATATTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
10 7 0.14
11 6 0.12
12 4 0.08
13 21 0.43
14 11 0.22
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (13 bp):
AAATATAATATAA
Found at i:19618 original size:24 final size:24
Alignment explanation
Indices: 19589--19662 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 24
19579 TTAATAATTT
*
19589 TAAATATGATATAAAAATATAATA
1 TAAATATAATATAAAAATATAATA
*
19613 TAAATAAAATATATTTAAAATA-AATA
1 TAAATATAATATA---AAAATATAATA
19639 -AAA-ATAATATAATAAATATAATA
1 TAAATATAATATAA-AAATATAATA
19662 T
1 T
19663 TATATATTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
21 1 0.02
22 5 0.12
23 4 0.10
24 18 0.44
25 3 0.07
26 4 0.10
27 6 0.15
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (24 bp):
TAAATATAATATAAAAATATAATA
Found at i:19759 original size:15 final size:15
Alignment explanation
Indices: 19739--19768 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19729 ATATTTAATA
*
19739 ATTTATATTATTTAT
1 ATTTATATAATTTAT
19754 ATTTATATAATTTAT
1 ATTTATATAATTTAT
19769 TCAAAGAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTTATATAATTTAT
Found at i:20103 original size:22 final size:23
Alignment explanation
Indices: 20078--20136 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 23
20068 ATTTAAAAAG
* *
20078 TATTAAAATACTTTTAT-ATTAA
1 TATTTAAATATTTTTATAATTAA
*
20100 TATTTATATATTTTTATAATTAA
1 TATTTAAATATTTTTATAATTAA
20123 -ATTTAAATATTTTT
1 TATTTAAATATTTTT
20137 TAAATAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 27 0.84
23 5 0.16
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (23 bp):
TATTTAAATATTTTTATAATTAA
Found at i:20144 original size:21 final size:22
Alignment explanation
Indices: 20083--20144 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
20073 AAAAGTATTA
* *
20083 AAATACTTTTAT-ATTAATATTT
1 AAATATTTTTATAAATAA-ATTT
* *
20105 ATATATTTTTATAATTAAATTT
1 AAATATTTTTATAAATAAATTT
20127 AAATATTTTT-TAAATAAA
1 AAATATTTTTATAAATAAA
20145 AAATTATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 7 0.20
22 23 0.66
23 5 0.14
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
AAATATTTTTATAAATAAATTT
Found at i:20840 original size:26 final size:26
Alignment explanation
Indices: 20818--20868 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
20808 GAGTAAATTT
*
20818 AATA-ATTTTAAATATAATATAAATAA
1 AATATATTTAAAAT-TAATATAAATAA
20844 AATATATTTAAAATTAATA-AAATAA
1 AATATATTTAAAATTAATATAAATAA
20869 CATCATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 6 0.26
26 9 0.39
27 8 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
AATATATTTAAAATTAATATAAATAA
Found at i:20970 original size:14 final size:15
Alignment explanation
Indices: 20953--20985 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
20943 CAAATTTTAA
20953 TATATTTA-ATAATT
1 TATATTTATATAATT
20967 TATATTTATATAATT
1 TATATTTATATAATT
20982 TATA
1 TATA
20986 AAAAAAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATATTTATATAATT
Found at i:23416 original size:31 final size:31
Alignment explanation
Indices: 23378--23500 Score: 140
Period size: 31 Copynumber: 4.0 Consensus size: 31
23368 AGTTTCAAAT
* * *
23378 CGTGCCACTGGTTAAGAATAGTGATTTTTGC
1 CGTGCCACCGGATAAGAATAGTGGTTTTTGC
* *
23409 CGTGCCACCAGATAAGAATAGCGGTTTTTTGC
1 CGTGCCACCGGATAAGAATAGTGG-TTTTTGC
* * *
23441 CGTGTCACC-GAAAAAAATAGTGGTTTTTGC
1 CGTGCCACCGGATAAGAATAGTGGTTTTTGC
* *
23471 CGTTCCACCGAATAAGAATAGTGGTTTTTG
1 CGTGCCACCGGATAAGAATAGTGGTTTTTG
23501 TTCCAACCCG
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
30 14 0.18
31 47 0.62
32 15 0.20
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (31 bp):
CGTGCCACCGGATAAGAATAGTGGTTTTTGC
Found at i:25083 original size:50 final size:50
Alignment explanation
Indices: 25029--25292 Score: 456
Period size: 50 Copynumber: 5.3 Consensus size: 50
25019 AATAGAAAAT
25029 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
* * *
25079 GCATGCATGGGAAAACACAAAAATTGCAATTGGAGACAAAACATGCGGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
25129 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
* * * *
25179 GCATGCATGGGAAAACACAAAAATTGCAATCGGAGACAAAACATGCGGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
*
25229 GCATTCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
25279 GCATGCATGGGAAA
1 GCATGCATGGGAAA
25293 TGAAAAAAGC
Statistics
Matches: 198, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 198 1.00
ACGTcount: A:0.44, C:0.15, G:0.26, T:0.15
Consensus pattern (50 bp):
GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
Found at i:25144 original size:100 final size:100
Alignment explanation
Indices: 25029--25292 Score: 510
Period size: 100 Copynumber: 2.6 Consensus size: 100
25019 AATAGAAAAT
25029 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAGGCATGCATGGGAAAA
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAGGCATGCATGGGAAAA
*
25094 CACAAAAATTGCAATTGGAGACAAAACATGCGGAG
66 CACAAAAATTGCAATCGGAGACAAAACATGCGGAG
25129 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAGGCATGCATGGGAAAA
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAGGCATGCATGGGAAAA
25194 CACAAAAATTGCAATCGGAGACAAAACATGCGGAG
66 CACAAAAATTGCAATCGGAGACAAAACATGCGGAG
*
25229 GCATTCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAGGCATGCATGGGAAA
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAGGCATGCATGGGAAA
25293 TGAAAAAAGC
Statistics
Matches: 162, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 162 1.00
ACGTcount: A:0.44, C:0.15, G:0.26, T:0.15
Consensus pattern (100 bp):
GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAGGCATGCATGGGAAAA
CACAAAAATTGCAATCGGAGACAAAACATGCGGAG
Found at i:26946 original size:53 final size:51
Alignment explanation
Indices: 26838--26963 Score: 143
Period size: 53 Copynumber: 2.5 Consensus size: 51
26828 AATTGCTCGT
*
26838 AATC-GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTT
1 AATCGGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTT-CTTC
* **
26889 AATCGAGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAATATTAATTT-TTCAC
1 AATCG-GGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTCTT--C
26942 AATCGGGGG-TACTCCAACCCCG
1 AATCGGGGGATACTCCAACCCCG
26964 TTATTTTCGA
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
51 19 0.29
52 8 0.12
53 39 0.59
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (51 bp):
AATCGGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTTC
Found at i:27021 original size:78 final size:79
Alignment explanation
Indices: 26891--27041 Score: 268
Period size: 78 Copynumber: 1.9 Consensus size: 79
26881 TTTCCTTTAA
* * *
26891 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGGTACTC
1 TCGAGGGGATACTCCAACCCCGGTTCTATCTCTAAAATATTAATTTTTCACAATCGGGGATACTC
26956 CAACCCCGTTATTT
66 CAACCCCGTTATTT
26970 TCGAGGGGATACTCCAA-CCCGGTTCTATCTCTAAAATATTAATTTTTCACAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTCTATCTCTAAAATATTAATTTTTCACAATCGGGGATACTC
27034 CAACCCCG
66 CAACCCCG
27042 GTTTTATTTC
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
78 52 0.75
79 17 0.25
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (79 bp):
TCGAGGGGATACTCCAACCCCGGTTCTATCTCTAAAATATTAATTTTTCACAATCGGGGATACTC
CAACCCCGTTATTT
Found at i:27065 original size:51 final size:51
Alignment explanation
Indices: 26974--27092 Score: 177
Period size: 51 Copynumber: 2.4 Consensus size: 51
26964 TTATTTTCGA
* **
26974 GGGGATACTCCAA-CCCGGTTCTATCTCTAAAATATTAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTCTATCTCTAAAACACCAATTTTTCACAATC
* * *
27024 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATC
1 GGGGATACTCCAACCCCGGTTCTATCTCTAAAACACCAATTTTTCACAATC
27075 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
27093 TTATTTCCGA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 13 0.21
51 49 0.79
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTCTATCTCTAAAACACCAATTTTTCACAATC
Found at i:27075 original size:129 final size:130
Alignment explanation
Indices: 26895--27162 Score: 430
Period size: 129 Copynumber: 2.1 Consensus size: 130
26885 CTTTAATCGA
* ** *
26895 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGGTACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
* * *
26960 CCCGTTATTTTCGAGGGGATACTCCAACC-CGGTTCTATCTCTAAAATATTAATTTTTCACAATC
66 CCCGTTATTTCCGAGGGGATACTCCAACCTCGGTTCTATCTCTAAAACATCAATTTTTCACAATC
*
27024 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
* * *
27089 CCCGTTATTTCCGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTCATAATC
66 CCCGTTATTTCCGAGGGGATACTCCAACCTCGGTTCTATCTCTAAAACATCAATTTTTCACAATC
27154 GGGGATACT
1 GGGGATACT
27163 TTAATCCTGA
Statistics
Matches: 127, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
129 88 0.69
130 39 0.31
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.33
Consensus pattern (130 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTATTTCCGAGGGGATACTCCAACCTCGGTTCTATCTCTAAAACATCAATTTTTCACAATC
Found at i:27197 original size:129 final size:128
Alignment explanation
Indices: 26895--27228 Score: 416
Period size: 129 Copynumber: 2.6 Consensus size: 128
26885 CTTTAATCGA
* * ** * *
26895 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGGTACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACA-CCATTTTTCATAATCGGGGATACTCCAAC
* * *
26960 CCCGTTATTTTCGAGGGGATACTCCAACCCGGTTCTATCTCTAAAATATTAATTTTTCACAATC
65 CCCGTTATTTCCGAGGGGATACTCCAACCCGGTTCTATCTCTAAAACATCAATTTTTCACAATC
*
27024 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACC-ATTTTTCATAATCGGGGATACTCCAAC
* * *
27089 CCCGTTATTTCCGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTCATAATC
65 CCCGTTATTTCCGAGGGGATACTCCAACC-CGGTTCTATCTCTAAAACATCAATTTTTCACAATC
** * * * * ** * *
27154 GGGGATACTTTAATCCTGATTTTATTTTTTAGAACACTGTTTTCCCATAATCGGGGATACTCTAA
1 GGGGATACTCCAACCCCGATTTTA-TTTCTAAAACACCATTTT-TCATAATCGGGGATACTCCAA
27219 CCCCGTTATT
64 CCCCGTTATT
27229 ATCTCCAAAA
Statistics
Matches: 179, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
129 87 0.49
130 53 0.30
131 39 0.22
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.35
Consensus pattern (128 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCATTTTTCATAATCGGGGATACTCCAACC
CCGTTATTTCCGAGGGGATACTCCAACCCGGTTCTATCTCTAAAACATCAATTTTTCACAATC
Found at i:39922 original size:87 final size:87
Alignment explanation
Indices: 39816--39992 Score: 354
Period size: 87 Copynumber: 2.0 Consensus size: 87
39806 GGAACCTTAA
39816 TCACATCTTGGGGTGATTTGAGAAAATCTTTTCATGGGTCAGGCGACACCGAAAGATCGATTGCT
1 TCACATCTTGGGGTGATTTGAGAAAATCTTTTCATGGGTCAGGCGACACCGAAAGATCGATTGCT
39881 CGTGAGAAATCTTTGAAAGCTC
66 CGTGAGAAATCTTTGAAAGCTC
39903 TCACATCTTGGGGTGATTTGAGAAAATCTTTTCATGGGTCAGGCGACACCGAAAGATCGATTGCT
1 TCACATCTTGGGGTGATTTGAGAAAATCTTTTCATGGGTCAGGCGACACCGAAAGATCGATTGCT
39968 CGTGAGAAATCTTTGAAAGCTC
66 CGTGAGAAATCTTTGAAAGCTC
39990 TCA
1 TCA
39993 GTGGAACATC
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 90 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (87 bp):
TCACATCTTGGGGTGATTTGAGAAAATCTTTTCATGGGTCAGGCGACACCGAAAGATCGATTGCT
CGTGAGAAATCTTTGAAAGCTC
Found at i:41300 original size:13 final size:13
Alignment explanation
Indices: 41282--41307 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41272 CAATTTTTTG
41282 TGTATCGATACAT
1 TGTATCGATACAT
41295 TGTATCGATACAT
1 TGTATCGATACAT
41308 ACTTGCTGTA
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:43705 original size:21 final size:20
Alignment explanation
Indices: 43681--43727 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
43671 TTTGATGCTG
43681 ATTTTGA-TGAAAAACGAAGCT
1 ATTTTGAGTGAAAAAC-AAG-T
* *
43702 ATTTTAAGTGAAGAACAAGT
1 ATTTTGAGTGAAAAACAAGT
43722 ATTTTG
1 ATTTTG
43728 CAAAAGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 6 0.27
21 9 0.41
22 7 0.32
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.34
Consensus pattern (20 bp):
ATTTTGAGTGAAAAACAAGT
Found at i:43866 original size:13 final size:13
Alignment explanation
Indices: 43848--43886 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
43838 ATAATCACCC
*
43848 TGTATCGATACAG
1 TGTATCGATACAA
43861 TGTATCGATACAA
1 TGTATCGATACAA
43874 TGTATCGATACAA
1 TGTATCGATACAA
43887 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:43897 original size:20 final size:20
Alignment explanation
Indices: 43872--43950 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
43862 GTATCGATAC
43872 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
43892 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
43917 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
43937 CATGTATCGATACA
1 AATGTATCGATACA
43951 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:45986 original size:15 final size:15
Alignment explanation
Indices: 45966--45996 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
45956 ATTTCGTTTG
*
45966 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
45981 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
45996 G
1 G
45997 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:47828 original size:21 final size:21
Alignment explanation
Indices: 47799--47843 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
47789 AAGTTTTCAT
*
47799 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
47819 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
47841 TTT
1 TTT
47844 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:50075 original size:13 final size:13
Alignment explanation
Indices: 50057--50082 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50047 CAATTTTTTG
50057 TGTATCGATACAT
1 TGTATCGATACAT
50070 TGTATCGATACAT
1 TGTATCGATACAT
50083 ACTTGCTGTA
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:50147 original size:21 final size:21
Alignment explanation
Indices: 50121--50196 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
50111 CTGCCAAGAA
50121 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
50142 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
50162 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
50183 ATGTATCGATACAT
1 ATGTATCGATACAT
50197 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:50166 original size:20 final size:20
Alignment explanation
Indices: 50141--50214 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
50131 ACATCTTTTT
50141 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
50161 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
50182 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
50202 CATGTATCGATAC
1 CATGTATCGATAC
50215 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:50178 original size:41 final size:41
Alignment explanation
Indices: 50121--50214 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
50111 CTGCCAAGAA
50121 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
50162 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
50203 ATGTATCGATAC
1 ATGTATCGATAC
50215 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:50911 original size:122 final size:123
Alignment explanation
Indices: 50721--51267 Score: 739
Period size: 122 Copynumber: 4.5 Consensus size: 123
50711 AAGAGCAGGA
* * *
50721 CGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTC
1 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTC
* *
50786 CTTTTAAAGCCCACACAAGCTGGTGGCACCTTT-AGTCTTCAAAGAGCAGGACGCTTT
66 CTTTTAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACTTT
*
50843 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCCGGTCCTCAAAGAGCAGGACGCCTTTTC
1 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTC
* * *
50908 CTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTCAGTCCTCAAAAAGCAGGACACCTT
66 CTTTTAAAGCCCACACAAGCTGGTGGCACC-TTTCAGTCCTCAAAGAGCAGGACACTTT
* * * * *
50967 CGCCTTTTAAAGCCTACACAAGCTGGTGGTACCTTT--AGTCCTCAAAGAGCAGGACGCCTTTTC
1 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTC
*
51030 CTTTTAAAGCCCACACAAGCTGGTGGCACCTTT-AGTCTTCAAAGAGCAGGACACTTT
66 CTTTTAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACTTT
* *
51087 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTCAGTCCTCAAAGAGTAGGACGCCTTTT-
1 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTC
** * * *
51151 CTTTTCAAAGCCCATGCAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTT
66 CTTTT-AAAGCCCACACAAGCTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGAC-ACTTT
* * * * * *
51212 -TCTTTTCAAAAAGCCCACACGAGTTGGTGGCAC-CTTCCAGCCCTCAAAAAGCAGGA
1 CGCCTTTC--AAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGA
51268 TACACTTTAT
Statistics
Matches: 376, Mismatches: 39, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
120 52 0.14
121 8 0.02
122 194 0.52
123 3 0.01
124 74 0.20
125 22 0.06
126 23 0.06
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (123 bp):
CGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTC
CTTTTAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACTTT
Found at i:50913 original size:62 final size:61
Alignment explanation
Indices: 50698--51267 Score: 678
Period size: 62 Copynumber: 9.4 Consensus size: 61
50688 TCCTTTCACC
50698 CTTTT-AGTCCTCAAAGAGCAGGACGCC---T--TTT-AAAGCCCACACAAGTTGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
50752 TTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCA
1 CTTTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
50814 CCTTT-AGTCTTCAAAGAGCAGGACG-CTTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGACGCCTTT-TCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
50874 CTTTTCCGGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGCTGGTGGCA
1 CTTTT-CAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * ** * * * *
50936 CCTTTTCAGTCCTCAAAAAGCAGGACACCTTCGCCTTTTAAAGCCTACACAAGCTGGTGGTA
1 -CTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
50998 CCTTT-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
51058 CCTTT-AGTCTTCAAAGAGCAGGAC-ACTTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGACGCCTTT-TCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * **
51118 CTTTTTCAGTCCTCAAAGAGTAGGACGCCTTTTCTTTTCAAAGCCCATGCAAGTTGGTGGCA
1 C-TTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
51180 CTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAAAGCCCACACGAGTTGGTGGCA
1 CTTTT-CAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTC--AAAGCCCACACAAGTTGGTGGCA
* * * *
51244 CCTTCCAGCCCTCAAAAAGCAGGA
1 CTTTTCAGTCCTCAAAGAGCAGGA
51268 TACACTTTAT
Statistics
Matches: 447, Mismatches: 49, Indels: 31
0.85 0.09 0.06
Matches are distributed among these distances:
54 4 0.01
56 22 0.05
59 9 0.02
60 150 0.34
61 14 0.03
62 195 0.44
63 30 0.07
64 23 0.05
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (61 bp):
CTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:51192 original size:244 final size:246
Alignment explanation
Indices: 50721--51267 Score: 825
Period size: 244 Copynumber: 2.2 Consensus size: 246
50711 AAGAGCAGGA
* **
50721 CGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTC
1 CGCCTTTTAAAGCCCACACAAGCTGGTGGCATCCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTC
*
50786 CTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACGCTTTCGCCTTTC
66 CTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACACTTTCGCCTTTC
*
50851 AAAGCCCACACAAGTTGGTGGCACTTTTCCGGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAA
131 AAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAA
50916 GCCCACACAAGCTGGTGGCACCTTTTCAGTCCTCAAAAAGCAGGACACCTT
196 GCCCACACAAGCTGGTGGCACCTTTTCAGTCCTCAAAAAGCAGGACACCTT
* *
50967 CGCCTTTTAAAGCCTACACAAGCTGGTGGTA-CCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTC
1 CGCCTTTTAAAGCCCACACAAGCTGGTGGCATCCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTC
51030 CTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACACTTTCGCCTTTC
66 CTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACACTTTCGCCTTTC
* * *
51095 AAAGCCCACACAAGTTGGTGGCACTTTTTCAGTCCTCAAAGAGTAGGACGCCTTTTCTTTTCAAA
131 AAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAA
** * * *
51160 GCCCATGCAAGTTGGTGGCA-CTTTTCCAGTCCTCAAAGAGCAGGACGCCTT
196 GCCCACACAAGCTGGTGGCACCTTTT-CAGTCCTCAAAAAGCAGGACACCTT
** * * * * *
51211 -TTCTTTTCAAAAAGCCCACACGAGTTGGTGGCA-CCTTCCAGCCCTCAAAAAGCAGGA
1 CGCCTTTT---AAAGCCCACACAAGCTGGTGGCATCCTTCTAGTCCTCAAAGAGCAGGA
51268 TACACTTTAT
Statistics
Matches: 272, Mismatches: 24, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
243 10 0.04
244 193 0.71
245 2 0.01
246 51 0.19
247 16 0.06
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (246 bp):
CGCCTTTTAAAGCCCACACAAGCTGGTGGCATCCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTC
CTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACACTTTCGCCTTTC
AAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAA
GCCCACACAAGCTGGTGGCACCTTTTCAGTCCTCAAAAAGCAGGACACCTT
Found at i:52154 original size:50 final size:50
Alignment explanation
Indices: 52100--52279 Score: 315
Period size: 50 Copynumber: 3.6 Consensus size: 50
52090 AAAAGAAAAT
* *
52100 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAACACAAAAATTGCAATTGGAGACAAAACATGCAGAG
*
52150 GCATGCATGGGAAAACACAAAAATTGCAATTGGAGACAAAACATGCGGAG
1 GCATGCATGGGAAAACACAAAAATTGCAATTGGAGACAAAACATGCAGAG
* *
52200 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAACACAAAAATTGCAATTGGAGACAAAACATGCAGAG
52250 GCATGCATGGGAAAACACAAAAATTGCAAT
1 GCATGCATGGGAAAACACAAAAATTGCAAT
52280 CGGGTGGGAA
Statistics
Matches: 122, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 122 1.00
ACGTcount: A:0.44, C:0.15, G:0.25, T:0.16
Consensus pattern (50 bp):
GCATGCATGGGAAAACACAAAAATTGCAATTGGAGACAAAACATGCAGAG
Found at i:52215 original size:100 final size:100
Alignment explanation
Indices: 52100--52279 Score: 360
Period size: 100 Copynumber: 1.8 Consensus size: 100
52090 AAAAGAAAAT
52100 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAGGCATGCATGGGAAAA
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAGGCATGCATGGGAAAA
52165 CACAAAAATTGCAATTGGAGACAAAACATGCGGAG
66 CACAAAAATTGCAATTGGAGACAAAACATGCGGAG
52200 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAGGCATGCATGGGAAAA
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAGGCATGCATGGGAAAA
52265 CACAAAAATTGCAAT
66 CACAAAAATTGCAAT
52280 CGGGTGGGAA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.44, C:0.15, G:0.25, T:0.16
Consensus pattern (100 bp):
GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAGGCATGCATGGGAAAA
CACAAAAATTGCAATTGGAGACAAAACATGCGGAG
Found at i:53944 original size:53 final size:51
Alignment explanation
Indices: 53836--53961 Score: 143
Period size: 53 Copynumber: 2.5 Consensus size: 51
53826 AATTGCTCGT
*
53836 AATC-GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTT
1 AATCGGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTT-CTTC
* **
53887 AATCGAGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAATATTAATTT-TTCAC
1 AATCG-GGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTCTT--C
53940 AATCGGGGG-TACTCCAACCCCG
1 AATCGGGGGATACTCCAACCCCG
53962 TTATTTTCGA
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
51 19 0.29
52 8 0.12
53 39 0.59
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (51 bp):
AATCGGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTTC
Found at i:54109 original size:79 final size:79
Alignment explanation
Indices: 53889--54188 Score: 476
Period size: 79 Copynumber: 3.8 Consensus size: 79
53879 TTTCCTTTAA
* * *
53889 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGGTACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTC
53954 CAACCCCGTTATTT
66 CAACCCCGTTATTT
* * * *
53968 TCGAGGGGATACTCCAA-CCCGGTTCTATCTCTAAAATATTAATTTTTCACAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTC
54032 CAACCCCGTTATTT
66 CAACCCCGTTATTT
* * * *
54046 CCAAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTC
54111 CAACCCCGTTATTT
66 CAACCCCGTTATTT
* *
54125 TCGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACT
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACT
54189 TTAATCCTGA
Statistics
Matches: 205, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
78 73 0.36
79 132 0.64
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.33
Consensus pattern (79 bp):
TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTC
CAACCCCGTTATTT
Found at i:56941 original size:50 final size:50
Alignment explanation
Indices: 56866--57048 Score: 267
Period size: 50 Copynumber: 3.7 Consensus size: 50
56856 TCACAATTTA
* * * *
56866 TATCGATACATTCTTCATTGTATCGATACATTCTGGGTTTTACCTAGATC
1 TATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTACCCAAATG
*
56916 TATCGATACATTTTTCATTGTATCGATACATTCTGAGTTTTACCCAAATG
1 TATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTACCCAAATG
* * * *
56966 TATCGATACATTTTTCGTTGTGTCGATGCATTCTCGGTTTTACCCAAATG
1 TATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTACCCAAATG
* *
57016 TATCGATACATTTCTCAATGTATCGATACATTC
1 TATCGATACATTTTTCATTGTATCGATACATTC
57049 AGGCATTTTG
Statistics
Matches: 118, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 118 1.00
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.42
Consensus pattern (50 bp):
TATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTACCCAAATG
Found at i:59477 original size:79 final size:79
Alignment explanation
Indices: 59383--59862 Score: 429
Period size: 79 Copynumber: 6.1 Consensus size: 79
59373 ATTCATGTTT
* * * * *
59383 TTATTTTCGAGGGGATACTCCAACCTCGATTTTATTTCCAAAGCACCAATTTTTCACAATCGAGG
1 TTATTTTCGAAGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCGATTTTTCACAATCGAGG
*
59448 ATACTCCAACCTCG
66 ATACTCCAACCCCG
* ** * * *
59462 TTATTTTCGAAGGGATACTCCAACTCCAATTTTATTTTCAAAACACTGATTTTCCACAATC-AGG
1 TTATTTTCGAAGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCGATTTTTCACAATCGA-G
*
59526 GATACTCCGACCCCG
65 GATACTCCAACCCCG
* * * * *
59541 TTACTTTT-G-AGGAGATACTACAACCCCGGTTTTATTTCTAAAACATCGATTTTTCACCAT-TA
1 TTA-TTTTCGAAGG-GATACTCCAACCCCGGTTTTATTTCCAAAACACCGATTTTTCACAATCGA
*
59603 GGGATACTCCAACCTCG
64 -GGATACTCCAACCCCG
* ** * *
59620 TTA-TTTCTGAGGGGATACTTTAACCCCGGTTTTATTTCCAAAACACCGATTTTT-ATCAATTGG
1 TTATTTTC-GAAGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCGATTTTTCA-CAATCGA
**
59683 GGATACTCCAACCTTG
64 GGATACTCCAACCCCG
* * * * * * * * * * *
59699 TTA-CTTCTGAAGAGAAACTACAACTCCGGTTTTATTTTCAAAACATCAATTTTTCACCATTGGG
1 TTATTTTC-GAAGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCGATTTTTCACAATCGAG
59763 GATACTCCAACCCCG
65 GATACTCCAACCCCG
* * *
59778 TTA-TTTCTAAGGAGATACTCTAACCCCGGTTTTCATTTCCAAAACATCGA-TTTTCTACAATCG
1 TTATTTTCGAAGG-GATACTCCAACCCCGGTTTT-ATTTCCAAAACACCGATTTTTC-ACAATCG
* *
59841 AAGATACTCTAACCCCG
63 AGGATACTCCAACCCCG
59858 TTATT
1 TTATT
59863 CTCAAAGGAA
Statistics
Matches: 328, Mismatches: 59, Indels: 26
0.79 0.14 0.06
Matches are distributed among these distances:
77 3 0.01
78 8 0.02
79 273 0.83
80 43 0.13
81 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (79 bp):
TTATTTTCGAAGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCGATTTTTCACAATCGAGG
ATACTCCAACCCCG
Found at i:59653 original size:158 final size:158
Alignment explanation
Indices: 59386--59860 Score: 530
Period size: 158 Copynumber: 3.0 Consensus size: 158
59376 CATGTTTTTA
* * * * * * * * *
59386 TTTTCGAGGGGATACTCCAACCTCGATTTTATTTCCAAAGCACCAATTTTTCA-CAATCGAGGAT
1 TTTT-GAGGAGATACTACAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACCATTAG-GGAT
* * * ** *
59450 ACTCCAACCTCGTTATTT-TCGAAGGGATACTCCAACTCCAATTTTATTTTCAAAACACTGATTT
64 ACTCCAACCTCGTTATTTCT-GAGGGGATACTCTAACCCCGGTTTTATTTCCAAAACACTGATTT
* *
59514 TCCACAATCAGGGATACTCCGACCCCGTTAC
128 TCTACAATCAGGGATACTCCAACCCCGTTAC
*
59545 TTTTGAGGAGATACTACAACCCCGGTTTTATTTCTAAAACATCGATTTTTCACCATTAGGGATAC
1 TTTTGAGGAGATACTACAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACCATTAGGGATAC
* *
59610 TCCAACCTCGTTATTTCTGAGGGGATACTTTAACCCCGGTTTTATTTCCAAAACACCGATTTT-T
66 TCCAACCTCGTTATTTCTGAGGGGATACTCTAACCCCGGTTTTATTTCCAAAACACTGATTTTCT
** **
59674 ATCAATTGGGGATACTCCAACCTTGTTAC
131 A-CAATCAGGGATACTCCAACCCCGTTAC
* * * * *
59703 TTCTGAAGAGAAACTACAACTCCGGTTTTATTT-TCAAAACATCAATTTTTCACCATTGGGGATA
1 TTTTGAGGAGATACTACAACCCCGGTTTTATTTCT-AAAACATCAATTTTTCACCATTAGGGATA
* * *
59767 CTCCAACCCCGTTATTTCTAAGGAGATACTCTAACCCCGGTTTTCATTTCCAAAACA-TCGATTT
65 CTCCAACCTCGTTATTTCTGAGGGGATACTCTAACCCCGGTTTT-ATTTCCAAAACACT-GATTT
* *
59831 TCTACAATC-GAAGATACTCTAACCCCGTTA
128 TCTACAATCAG-GGATACTCCAACCCCGTTA
59861 TTCTCAAAGG
Statistics
Matches: 268, Mismatches: 40, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
157 2 0.01
158 218 0.81
159 46 0.17
160 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (158 bp):
TTTTGAGGAGATACTACAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACCATTAGGGATAC
TCCAACCTCGTTATTTCTGAGGGGATACTCTAACCCCGGTTTTATTTCCAAAACACTGATTTTCT
ACAATCAGGGATACTCCAACCCCGTTAC
Found at i:59806 original size:237 final size:237
Alignment explanation
Indices: 59387--59831 Score: 587
Period size: 237 Copynumber: 1.9 Consensus size: 237
59377 ATGTTTTTAT
* *
59387 TTTCGAGGGGATACTCCAACCTCGATTTTATTTCCAAAGCACCAATTTTTCACAATCGAGGATAC
1 TTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATAC
* * * * *
59452 TCCAACCTCGTTATTTTCGAAGGGATACTCCAACTCCAATTTTATTTTCAAAACACTGATTTTCC
66 TCCAACCTCGTTATTCTCGAAGAGAAACTACAACTCCAATTTTATTTTCAAAACACTAATTTTCC
* * *
59517 ACAATCAGGGATACTCCGACCCCGTTACTTTTGAGGAGATACTACAACCCCGGTTTT-ATTTCTA
131 ACAATCAGGGATACTCCAACCCCGTTACTTTTAAGGAGATACTACAACCCCGGTTTTCATTTCCA
59581 AAACATCGATTTTTCACCATTAGGGATACTCCAACCTCGTTA
196 AAACATCGATTTTTCACCATTAGGGATACTCCAACCTCGTTA
** * * * *
59623 TTTCTGAGGGGATACTTTAACCCCGGTTTTATTTCCAAAACACCGATTTTT-ATCAATTGGGGAT
1 TTTC-GAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCA-CAATCGAGGAT
* **
59687 ACTCCAACCTTGTTACTTCT-GAAGAGAAACTACAACTCCGGTTTTATTTTCAAAACA-TCAATT
64 ACTCCAACCTCGTTA-TTCTCGAAGAGAAACTACAACTCCAATTTTATTTTCAAAACACT-AATT
* * **
59750 TTTCACCATTGGGGATACTCCAACCCCGTTA-TTTCTAAGGAGATACT-CTAACCCCGGTTTTCA
127 TTCCACAATCAGGGATACTCCAACCCCGTTACTTT-TAAGGAGATACTAC-AACCCCGGTTTTCA
59813 TTTCCAAAACATCGATTTT
190 TTTCCAAAACATCGATTTT
59832 CTACAATCGA
Statistics
Matches: 179, Mismatches: 23, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
236 10 0.06
237 147 0.82
238 22 0.12
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (237 bp):
TTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATAC
TCCAACCTCGTTATTCTCGAAGAGAAACTACAACTCCAATTTTATTTTCAAAACACTAATTTTCC
ACAATCAGGGATACTCCAACCCCGTTACTTTTAAGGAGATACTACAACCCCGGTTTTCATTTCCA
AAACATCGATTTTTCACCATTAGGGATACTCCAACCTCGTTA
Found at i:63848 original size:31 final size:31
Alignment explanation
Indices: 63810--63933 Score: 149
Period size: 31 Copynumber: 4.0 Consensus size: 31
63800 TAGTTTCAAA
* * *
63810 CCGTGCCACCAGTTAAGAATAATGGTTTTTG
1 CCGTGCCACCAGATAAGAATAGTAGTTTTTG
*
63841 CCGTGCCACCGGATAAGAATAGTAGTTTTTG
1 CCGTGCCACCAGATAAGAATAGTAGTTTTTG
* * * *
63872 TCGTGCCACCGGATAAGAATAGTGGTTTTTA
1 CCGTGCCACCAGATAAGAATAGTAGTTTTTG
* * *
63903 CTGTACCACTAGATAAGAATAGTAGTTTTTG
1 CCGTGCCACCAGATAAGAATAGTAGTTTTTG
63934 TTTCAACCCG
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 79 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (31 bp):
CCGTGCCACCAGATAAGAATAGTAGTTTTTG
Found at i:63881 original size:62 final size:62
Alignment explanation
Indices: 63811--63934 Score: 176
Period size: 62 Copynumber: 2.0 Consensus size: 62
63801 AGTTTCAAAC
* * * *
63811 CGTGCCACCAGTTAAGAATAATGGTTTTTGCCGTGCCACCGGATAAGAATAGTAGTTTTTGT
1 CGTGCCACCAGATAAGAATAATGGTTTTTACCGTACCACCAGATAAGAATAGTAGTTTTTGT
* * * *
63873 CGTGCCACCGGATAAGAATAGTGGTTTTTACTGTACCACTAGATAAGAATAGTAGTTTTTGT
1 CGTGCCACCAGATAAGAATAATGGTTTTTACCGTACCACCAGATAAGAATAGTAGTTTTTGT
63935 TTCAACCCGT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33
Consensus pattern (62 bp):
CGTGCCACCAGATAAGAATAATGGTTTTTACCGTACCACCAGATAAGAATAGTAGTTTTTGT
Found at i:64000 original size:38 final size:37
Alignment explanation
Indices: 63920--64035 Score: 103
Period size: 38 Copynumber: 3.0 Consensus size: 37
63910 ACTAGATAAG
* *
63920 AATAGTAGTTTTTGTT-TCAACCCGTGCCTACC-G-GTAA
1 AATAGTAGTTTTTGTTCT-AA-CCATGCC-ACCAGATTAA
63957 GAATAGTAGTTTTTGTTCTGAACCATGCCACCAGATTAA
1 -AATAGTAGTTTTTGTTCT-AACCATGCCACCAGATTAA
* * *
63996 AATAGTGGTTTTTGTTCTAACTTATGCCACAAGGATTAA
1 AATAGTAGTTTTTGTTCTAAC-CATGCCACCA-GATTAA
64035 A
1 A
64036 TGTTATTTTA
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
37 6 0.09
38 48 0.72
39 13 0.19
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (37 bp):
AATAGTAGTTTTTGTTCTAACCATGCCACCAGATTAA
Found at i:64138 original size:17 final size:17
Alignment explanation
Indices: 64116--64154 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
64106 TTGATAAATC
64116 TGATTTTGTAAA-TAATA
1 TGATTTTG-AAAGTAATA
64133 TGATTTTGAAAGTAATA
1 TGATTTTGAAAGTAATA
64150 T-ATTT
1 TGATTT
64155 ATAGAATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (17 bp):
TGATTTTGAAAGTAATA
Found at i:65232 original size:14 final size:15
Alignment explanation
Indices: 65198--65239 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
65188 TTTATAAAAC
*
65198 AAATTTAATATTTAT
1 AAATTTAATATTTAA
*
65213 AAATTTAGTA-TTAA
1 AAATTTAATATTTAA
*
65227 AAATTTAAAATTT
1 AAATTTAATATTT
65240 TTCAGCGCTC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
AAATTTAATATTTAA
Found at i:72952 original size:9 final size:9
Alignment explanation
Indices: 72938--72968 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
72928 ATATGGTTTG
72938 AAAATAATA
1 AAAATAATA
72947 AAAATAATA
1 AAAATAATA
72956 AAAATAATA
1 AAAATAATA
72965 AAAA
1 AAAA
72969 ATTTGCTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAATAATA
Found at i:77771 original size:6 final size:6
Alignment explanation
Indices: 77748--77791 Score: 61
Period size: 6 Copynumber: 7.0 Consensus size: 6
77738 TATAACACGA
*
77748 CAATAT CACATGAT CAATAT CAATAT CAATAT CAATAT TAATAT
1 CAATAT CA-AT-AT CAATAT CAATAT CAATAT CAATAT CAATAT
77792 GCAAACATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
6 27 0.77
7 4 0.11
8 4 0.11
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (6 bp):
CAATAT
Found at i:79815 original size:6 final size:6
Alignment explanation
Indices: 79804--79832 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
79794 AGAAAAACTT
79804 CATATA CATATA CATATA CATATA CATAT
1 CATATA CATATA CATATA CATATA CATAT
79833 TTATACACCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.34
Consensus pattern (6 bp):
CATATA
Found at i:85455 original size:13 final size:13
Alignment explanation
Indices: 85437--85462 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85427 CAGTTTTTTG
85437 TGTATCGATACAT
1 TGTATCGATACAT
85450 TGTATCGATACAT
1 TGTATCGATACAT
85463 ACTTTGTGTA
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:85474 original size:32 final size:33
Alignment explanation
Indices: 85417--85480 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
85407 TACAAGCCAA
**
85417 TGTATCGATACAGTTTTTTGTGTATCGATACAT
1 TGTATCGATACAGTACTTTGTGTATCGATACAT
85450 TGTATCGATACA-TACTTTGTGTATCGATACA
1 TGTATCGATACAGTACTTTGTGTATCGATACA
85481 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAGTACTTTGTGTATCGATACAT
Found at i:86181 original size:39 final size:40
Alignment explanation
Indices: 86106--86185 Score: 101
Period size: 39 Copynumber: 2.0 Consensus size: 40
86096 TTTTCTTTCT
*
86106 CCCTTAACTAAAGTAATTTTAACAAATTCGTACATTCTCC
1 CCCTTAACTAAAGTAATTTTAACAAATTCATACATTCTCC
* * *
86146 CCCTTAA-T-AAGATAATTTTAGCAAATTTATGCATTCTCC
1 CCCTTAACTAAAG-TAATTTTAACAAATTCATACATTCTCC
86185 C
1 C
86186 TTTTTAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
38 3 0.09
39 25 0.71
40 7 0.20
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.36
Consensus pattern (40 bp):
CCCTTAACTAAAGTAATTTTAACAAATTCATACATTCTCC
Found at i:88044 original size:13 final size:13
Alignment explanation
Indices: 88028--88063 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
88018 AATCCCCCTA
88028 TATCGATACAGTG
1 TATCGATACAGTG
*
88041 TATCGATACATTG
1 TATCGATACAGTG
*
88054 TATTGATACA
1 TATCGATACA
88064 AAGAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (13 bp):
TATCGATACAGTG
Found at i:89286 original size:165 final size:165
Alignment explanation
Indices: 89090--89420 Score: 662
Period size: 165 Copynumber: 2.0 Consensus size: 165
89080 TGAGATATAA
89090 CAATGAGCCAATCATAGACCTATAAAGTTTAGTGTCGATAACATTACCTCCTTCATCTTTTTCAA
1 CAATGAGCCAATCATAGACCTATAAAGTTTAGTGTCGATAACATTACCTCCTTCATCTTTTTCAA
89155 GCTTCATTGAAGTACTCATCGGAGTTTCACATGGTTTGACTTGATCCATTTGAAATCTTTTGAGT
66 GCTTCATTGAAGTACTCATCGGAGTTTCACATGGTTTGACTTGATCCATTTGAAATCTTTTGAGT
89220 AGTTCTTTCGTGTACTTGGCTTGATTGATGAAGAT
131 AGTTCTTTCGTGTACTTGGCTTGATTGATGAAGAT
89255 CAATGAGCCAATCATAGACCTATAAAGTTTAGTGTCGATAACATTACCTCCTTCATCTTTTTCAA
1 CAATGAGCCAATCATAGACCTATAAAGTTTAGTGTCGATAACATTACCTCCTTCATCTTTTTCAA
89320 GCTTCATTGAAGTACTCATCGGAGTTTCACATGGTTTGACTTGATCCATTTGAAATCTTTTGAGT
66 GCTTCATTGAAGTACTCATCGGAGTTTCACATGGTTTGACTTGATCCATTTGAAATCTTTTGAGT
89385 AGTTCTTTCGTGTACTTGGCTTGATTGATGAAGAT
131 AGTTCTTTCGTGTACTTGGCTTGATTGATGAAGAT
89420 C
1 C
89421 CCATCTTTGG
Statistics
Matches: 166, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
165 166 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (165 bp):
CAATGAGCCAATCATAGACCTATAAAGTTTAGTGTCGATAACATTACCTCCTTCATCTTTTTCAA
GCTTCATTGAAGTACTCATCGGAGTTTCACATGGTTTGACTTGATCCATTTGAAATCTTTTGAGT
AGTTCTTTCGTGTACTTGGCTTGATTGATGAAGAT
Found at i:91672 original size:33 final size:33
Alignment explanation
Indices: 91635--91701 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
91625 TTCAACGATT
91635 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
91668 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
91701 T
1 T
91702 TTAAGCTACT
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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:91673 original size:13 final size:13
Alignment explanation
Indices: 91655--91679 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91645 CATAAAATGT
91655 TGTATCGATACAA
1 TGTATCGATACAA
91668 TGTATCGATACA
1 TGTATCGATACA
91680 TATTTTTTTG
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:91763 original size:13 final size:13
Alignment explanation
Indices: 91745--91769 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91735 ATTACTCACA
91745 TGTATCGATACAT
1 TGTATCGATACAT
91758 TGTATCGATACA
1 TGTATCGATACA
91770 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:91906 original size:52 final size:52
Alignment explanation
Indices: 91778--91898 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
91768 CACTGATCTT
*
91778 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
91830 TGTATCGATACATGCCGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
91882 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
91899 ATAAATTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:94061 original size:27 final size:27
Alignment explanation
Indices: 94030--94105 Score: 143
Period size: 27 Copynumber: 2.8 Consensus size: 27
94020 TTTATTCATC
94030 GGGGACACTCCAACCCCATTTTTCCGA
1 GGGGACACTCCAACCCCATTTTTCCGA
94057 GGGGACACTCCAACCCCATTTTTCCGA
1 GGGGACACTCCAACCCCATTTTTCCGA
*
94084 GGGGACACTCCAACCCCGTTTT
1 GGGGACACTCCAACCCCATTTT
94106 CAATCAAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.21, C:0.37, G:0.20, T:0.22
Consensus pattern (27 bp):
GGGGACACTCCAACCCCATTTTTCCGA
Found at i:95780 original size:21 final size:21
Alignment explanation
Indices: 95751--95795 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
95741 AAGTTTTTAT
*
95751 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
95771 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
95793 TTT
1 TTT
95796 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:98032 original size:13 final size:13
Alignment explanation
Indices: 98014--98039 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
98004 CAATTTTTTG
98014 TGTATCGATACAT
1 TGTATCGATACAT
98027 TGTATCGATACAT
1 TGTATCGATACAT
98040 ACTTTGTGTA
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:98051 original size:32 final size:33
Alignment explanation
Indices: 97994--98057 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
97984 TACAAGCCAA
**
97994 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
98027 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
98058 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:102898 original size:22 final size:20
Alignment explanation
Indices: 102840--102920 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
102830 TCTGAAAAAA
* * *
102840 AATTGTATCAATACATAAGT
1 AATTGTATCGATACATTATT
** * *
102860 AAAAGTATCCATACATTGCTT
1 AATTGTATCGATACATT-ATT
102881 AAATTGTATCGATACATTATT
1 -AATTGTATCGATACATTATT
*
102902 CATTGTATCGATACATTAT
1 AATTGTATCGATACATTAT
102921 GCATTCTGGG
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
20 31 0.65
21 3 0.06
22 14 0.29
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (20 bp):
AATTGTATCGATACATTATT
Found at i:102908 original size:20 final size:20
Alignment explanation
Indices: 102883--102925 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
102873 CATTGCTTAA
*
102883 ATTGTATCGATACATTATTC
1 ATTGTATCGATACATTATGC
102903 ATTGTATCGATACATTATGC
1 ATTGTATCGATACATTATGC
102923 ATT
1 ATT
102926 CTGGGTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (20 bp):
ATTGTATCGATACATTATGC
Found at i:104571 original size:23 final size:23
Alignment explanation
Indices: 104521--104574 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
104511 ACAAATAATT
* * *
104521 TTGACAAAAGAAGAGTTCAAATT
1 TTGATAAAAAAAGAGTTCAAATC
104544 TTGATAAAAAAAGAGTTCAAATC
1 TTGATAAAAAAAGAGTTCAAATC
104567 TTGATAAA
1 TTGATAAA
104575 TTTCGAAGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.28
Consensus pattern (23 bp):
TTGATAAAAAAAGAGTTCAAATC
Found at i:106472 original size:12 final size:12
Alignment explanation
Indices: 106434--106475 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
106424 GTTGATGTTT
106434 TGGCTAA-AATA
1 TGGCTAAGAATA
*
106445 TGGCT-AGAAGTG
1 TGGCTAAGAA-TA
106457 TGGCTAAGAATA
1 TGGCTAAGAATA
106469 TGGCTAA
1 TGGCTAA
106476 ATCTAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 1 0.04
11 7 0.27
12 14 0.54
13 4 0.15
ACGTcount: A:0.36, C:0.10, G:0.29, T:0.26
Consensus pattern (12 bp):
TGGCTAAGAATA
Found at i:110422 original size:21 final size:22
Alignment explanation
Indices: 110398--110451 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
110388 TATGGGTAGA
* * *
110398 TTAATTATTTCAATAAT-TAAT
1 TTAAATATTTAAATAATCTAAC
*
110419 TTAAATATCTAAATAATCTAAC
1 TTAAATATTTAAATAATCTAAC
110441 TTAAATATTTA
1 TTAAATATTTA
110452 TGAGAATTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (22 bp):
TTAAATATTTAAATAATCTAAC
Found at i:110792 original size:33 final size:33
Alignment explanation
Indices: 110755--110827 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
110745 TATATGGCTG
* * * * *
110755 AATTCTTGGTTTTTATTCTTAAAAGGTTAGTCA
1 AATTCTTAGTCTTTATCCCTAAAAGGTTAGCCA
110788 AATTCTTAGTCTTTATCCCTAAAAGGTTAGCCA
1 AATTCTTAGTCTTTATCCCTAAAAGGTTAGCCA
110821 AATTCTT
1 AATTCTT
110828 TGAGCATTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (33 bp):
AATTCTTAGTCTTTATCCCTAAAAGGTTAGCCA
Found at i:110952 original size:70 final size:70
Alignment explanation
Indices: 110867--111014 Score: 280
Period size: 70 Copynumber: 2.1 Consensus size: 70
110857 CACAGAAGTA
*
110867 AAGAG-TAAGTAAATCTCTTAAATCTATCTTTATTCAAGCTAAAAAACTACCTAATTACTCAATA
1 AAGAGTTAAGTAAATCTCTTAAATCTATCTTTATTCAAGCTAAAAAACCACCTAATTACTCAATA
110931 TAAAT
66 TAAAT
110936 AAGAGTTAAGTAAATCTCTTAAATCTATCTTTATTCAAGCTAAAAAACCACCTAATTACTCAATA
1 AAGAGTTAAGTAAATCTCTTAAATCTATCTTTATTCAAGCTAAAAAACCACCTAATTACTCAATA
111001 TAAAT
66 TAAAT
111006 AAGAGTTAA
1 AAGAGTTAA
111015 TGCTTCTAAT
Statistics
Matches: 77, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
69 5 0.06
70 72 0.94
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (70 bp):
AAGAGTTAAGTAAATCTCTTAAATCTATCTTTATTCAAGCTAAAAAACCACCTAATTACTCAATA
TAAAT
Found at i:113884 original size:2 final size:2
Alignment explanation
Indices: 113877--113906 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
113867 TAAAATTTTG
113877 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
113907 TTTATGAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:115516 original size:13 final size:13
Alignment explanation
Indices: 115498--115522 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
115488 ATATTGTTTA
115498 GTATCGATACATT
1 GTATCGATACATT
115511 GTATCGATACAT
1 GTATCGATACAT
115523 GTTCTTGGTA
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):
GTATCGATACATT
Found at i:115539 original size:32 final size:33
Alignment explanation
Indices: 115477--115541 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
115467 CATACCCAGA
*
115477 TGTATCGATACATATTGTTTAGTATCGATACAT
1 TGTATCGATACATATTGCTTAGTATCGATACAT
* *
115510 TGTATCGATACATGTT-CTTGGTATCGATACAT
1 TGTATCGATACATATTGCTTAGTATCGATACAT
115542 CATGAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATATTGCTTAGTATCGATACAT
Found at i:117597 original size:51 final size:52
Alignment explanation
Indices: 117487--117602 Score: 144
Period size: 52 Copynumber: 2.2 Consensus size: 52
117477 AGTTAACTGG
* * * * *
117487 ATGTATCCATACATTGAAGAATGTATCAATATATTCGGGTCGAAAACCTAAA
1 ATGTATCGATACAATGAAGAATGTATCAATACATTCGGATCGAAAACCCAAA
* ** *
117539 ATGTATCGATACAATGAATAATGTATTGATACATTTGGATC-AAAACCCAAA
1 ATGTATCGATACAATGAAGAATGTATCAATACATTCGGATCGAAAACCCAAA
117590 ATGTATCGATACA
1 ATGTATCGATACA
117603 TTTTCTTTCC
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
51 22 0.40
52 33 0.60
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (52 bp):
ATGTATCGATACAATGAAGAATGTATCAATACATTCGGATCGAAAACCCAAA
Found at i:119296 original size:23 final size:25
Alignment explanation
Indices: 119270--119319 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
119260 ATATACACTA
*
119270 ATAATATATA-TAT-ATATATATGC
1 ATAATATAAATTATAATATATATGC
*
119293 ATAATATAAATTATAATATATTTGC
1 ATAATATAAATTATAATATATATGC
119318 AT
1 AT
119320 GTTGAAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 9 0.39
24 3 0.13
25 11 0.48
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (25 bp):
ATAATATAAATTATAATATATATGC
Found at i:119805 original size:16 final size:16
Alignment explanation
Indices: 119784--119817 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
119774 ACCAAGTTCA
119784 ATAATA-ATATTATCTT
1 ATAATATATATTAT-TT
119800 ATAATATATATTATTT
1 ATAATATATATTATTT
119816 AT
1 AT
119818 TTATTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
ATAATATATATTATTT
Found at i:120183 original size:18 final size:18
Alignment explanation
Indices: 120160--120196 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
120150 ATAAACTATC
*
120160 TAATAAATTGATTTTATA
1 TAATAAATTAATTTTATA
120178 TAATAAATTAATTTTATA
1 TAATAAATTAATTTTATA
120196 T
1 T
120197 CTTTTTAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TAATAAATTAATTTTATA
Found at i:120798 original size:2 final size:2
Alignment explanation
Indices: 120791--120821 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
120781 TATCTTCTAA
120791 AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
120822 GAATATGAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:122065 original size:6 final size:6
Alignment explanation
Indices: 122054--122080 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
122044 AAAAACCAAC
122054 TTTAAA TTTAAA TTTAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT
122081 TACCTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:122615 original size:25 final size:24
Alignment explanation
Indices: 122580--122642 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
122570 AAACAGTTCT
122580 TTTTTAATTATATAATATATAT-TAA
1 TTTTT-ATTATATAATAT-TATGTAA
*
122605 TTTTTATT-TATGCATATTATGTAA
1 TTTTTATTATAT-AATATTATGTAA
122629 TTTTTATTATATAA
1 TTTTTATTATATAA
122643 AGAATAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
23 6 0.18
24 19 0.58
25 8 0.24
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.59
Consensus pattern (24 bp):
TTTTTATTATATAATATTATGTAA
Found at i:125451 original size:46 final size:46
Alignment explanation
Indices: 125397--125484 Score: 149
Period size: 46 Copynumber: 1.9 Consensus size: 46
125387 TTTTCTCGAC
*
125397 TAGTTTTGATGCTGATCACTAAGCAAAATCATGTTTTTCTGGACTG
1 TAGTTTTGATGCTGATCACTAAACAAAATCATGTTTTTCTGGACTG
* *
125443 TAGTTTTGATTCTGATTACTAAACAAAATCATGTTTTTCTGG
1 TAGTTTTGATGCTGATCACTAAACAAAATCATGTTTTTCTGG
125485 GATGGATCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (46 bp):
TAGTTTTGATGCTGATCACTAAACAAAATCATGTTTTTCTGGACTG
Found at i:127770 original size:2 final size:2
Alignment explanation
Indices: 127763--127792 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
127753 GAATCTGCCT
127763 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
127793 GTATTTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:129356 original size:169 final size:169
Alignment explanation
Indices: 129061--129384 Score: 420
Period size: 169 Copynumber: 1.9 Consensus size: 169
129051 AATTTGATGA
** * *
129061 TTTAATAATAAATAATATTAGTTTACGTATTTAATATTAATATAATATTTTAATGTAAAATATTA
1 TTTAATAATAAATAATATTAGTTTAAATATTTAACATTAATATAATATTTTAATATAAAATATTA
* * **
129126 ATATTTGAAATATTATATTAAAAATTAATAGTTTGATGTTAAATAAATTTTTAAGATTTTAATAT
66 ATATTTGAAATATTATATTAAAAATCAATAGTTTCATAATAAATAAATTTTTAAGATTTTAATAT
*
129191 CTATGTCAATA-TCATTATTTAAAAATATCAAAATAATAT
131 CTACGTCAATACT-ATTATTTAAAAATATCAAAATAATAT
* * * * *
129230 TTTAATAATAAATAGTATTATTTTAAATGTTTAACATTAATATAATATTTTAGTATTAAATATTA
1 TTTAATAATAAATAATATTAGTTTAAATATTTAACATTAATATAATATTTTAATATAAAATATTA
* * * * *
129295 TTATTTGAAATAATTATATTTTAATATCAATATTTTCATAATAAAT-AA-TTTTAATATTTTAAT
66 ATATTTGAAAT-ATTATA-TTAAAAATCAATAGTTTCATAATAAATAAATTTTTAAGATTTTAAT
*
129358 ATTTACGTCAATACTATTATTTAAAAA
129 ATCTACGTCAATACTATTATTTAAAAA
129385 GATTTTTCAA
Statistics
Matches: 132, Mismatches: 20, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
169 103 0.78
170 9 0.07
171 20 0.15
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.47
Consensus pattern (169 bp):
TTTAATAATAAATAATATTAGTTTAAATATTTAACATTAATATAATATTTTAATATAAAATATTA
ATATTTGAAATATTATATTAAAAATCAATAGTTTCATAATAAATAAATTTTTAAGATTTTAATAT
CTACGTCAATACTATTATTTAAAAATATCAAAATAATAT
Found at i:129836 original size:11 final size:11
Alignment explanation
Indices: 129815--129851 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
129805 TTGATTGTTC
129815 ATATATTTTATT
1 ATAT-TTTTATT
129827 ATATTTTTATT
1 ATATTTTTATT
129838 AT-TTTTT-TT
1 ATATTTTTATT
129847 ATATT
1 ATATT
129852 ATATTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 4 0.17
10 7 0.29
11 9 0.38
12 4 0.17
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
ATATTTTTATT
Found at i:129858 original size:11 final size:10
Alignment explanation
Indices: 129816--129861 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
129806 TGATTGTTCA
129816 TATATTTTAT
1 TATATTTTAT
129826 TATATTTTTAT
1 TATA-TTTTAT
*
129837 TAT-TTTTTT
1 TATATTTTAT
*
129846 TATATTATAT
1 TATATTTTAT
129856 T-TATTT
1 TATATTT
129862 ATTCATGTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
9 12 0.40
10 9 0.30
11 9 0.30
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TATATTTTAT
Found at i:130275 original size:18 final size:17
Alignment explanation
Indices: 130252--130294 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
130242 AGTCAATTTG
130252 ATTAATTTAACTTTTGAA
1 ATTAATTTAA-TTTTGAA
*
130270 ATTAA-TTGATTTTGAA
1 ATTAATTTAATTTTGAA
130286 AGTTAATTT
1 A-TTAATTT
130295 TTTCAATTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 8 0.36
17 7 0.32
18 7 0.32
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (17 bp):
ATTAATTTAATTTTGAA
Found at i:132617 original size:13 final size:13
Alignment explanation
Indices: 132599--132623 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
132589 GCAGGGAGCT
132599 TTGTATCGATACG
1 TTGTATCGATACG
132612 TTGTATCGATAC
1 TTGTATCGATAC
132624 AATAATTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACG
Found at i:133217 original size:13 final size:13
Alignment explanation
Indices: 133199--133255 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
133189 CATAAAGTGT
133199 TGTATCGATACAA
1 TGTATCGATACAA
133212 TGTATCGATACATAA
1 TGTATCGATAC--AA
133227 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
133244 TGTATCGATACA
1 TGTATCGATACA
133256 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:133234 original size:32 final size:32
Alignment explanation
Indices: 133179--133279 Score: 184
Period size: 32 Copynumber: 3.1 Consensus size: 32
133169 TTCAACGATT
133179 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
133212 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
133244 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
133276 TGTA
1 TGTA
133280 AGCTACTGCC
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 54 0.81
33 13 0.19
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:133236 original size:19 final size:18
Alignment explanation
Indices: 133177--133274 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
133167 ATTTCAACGA
133177 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
133196 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
133212 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
133228 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
133244 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
133260 TTTTGTATCGATACA
1 -TTTGTATCGATACA
133275 ATGTAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 24 0.36
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:133335 original size:13 final size:13
Alignment explanation
Indices: 133317--133341 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
133307 ATTACTCAAA
133317 TGTATCGATACAT
1 TGTATCGATACAT
133330 TGTATCGATACA
1 TGTATCGATACA
133342 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:137156 original size:49 final size:49
Alignment explanation
Indices: 137078--137493 Score: 318
Period size: 49 Copynumber: 8.9 Consensus size: 49
137068 ATGTTAAAGA
* * *
137078 TGCCAATATGCTGATTCAAGGCCAACGATATTAGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * **
137127 TGCCAATGTGCTGATTCAAAGCCAGCGATATCGGACTTAAAGATGAACT
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* **
137176 TGCCAATGTGCTGATTCAAGGCCAGGGACGTTGGACTTAAAGATGGTTAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGG
* * * * * *
137228 TGCCAATGTACTAATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
137277 TGCCAATATGCTGATTCAAGGCTAGCGATATTGG-------GCT---CG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
137316 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGT-AAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* ** *
137364 TGCCAATATAATGATTTAAGGCCAGCGATATTAGG-C-T-----T--A--
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGATGAAGG
* * * * *
137403 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
137452 TGCCAATATGCTGATCCAAGGCTAGCGATATTAGACTTAAAG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
137494 GTTCCACGGA
Statistics
Matches: 290, Mismatches: 53, Indels: 48
0.74 0.14 0.12
Matches are distributed among these distances:
38 2 0.01
39 59 0.20
40 1 0.00
41 1 0.00
42 3 0.01
45 1 0.00
46 2 0.01
47 2 0.01
48 29 0.10
49 149 0.51
50 1 0.00
51 1 0.00
52 39 0.13
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
Found at i:137246 original size:150 final size:150
Alignment explanation
Indices: 137029--137307 Score: 373
Period size: 150 Copynumber: 1.9 Consensus size: 150
137019 TGAAGAATGA
* * * * *
137029 CAATGTGCTGATTCATGGCCAACGACCTTGGGCTTAGGAATGTTAAAGATGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAACGACCTTGGACTTAAGAATGTTAAAGATGCCAATATACTAATT
* * *
137094 CAAGGCCAACGATATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAAGCCAGCGATATC
66 CAAGGCCAACGACATCAGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAAGCCAGCGATATC
137159 GGACTTAAAGATGAACTTGC
131 GGACTTAAAGATGAACTTGC
** * * *
137179 CAATGTGCTGATTCAAGGCCAGGGACGTTGGACTTAA-AGATGGTT-AAGGTGCCAATGTACTAA
1 CAATGTGCTGATTCAAGGCCAACGACCTTGGACTTAAGA-AT-GTTAAAGATGCCAATATACTAA
* * * *
137242 TTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCTAGCGATA
64 TTCAAGGCCAACGACATCAGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAAGCCAGCGATA
137307 T
129 T
137308 TGGGCTCGTG
Statistics
Matches: 110, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
149 1 0.01
150 106 0.96
151 3 0.03
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (150 bp):
CAATGTGCTGATTCAAGGCCAACGACCTTGGACTTAAGAATGTTAAAGATGCCAATATACTAATT
CAAGGCCAACGACATCAGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAAGCCAGCGATATC
GGACTTAAAGATGAACTTGC
Found at i:137273 original size:101 final size:98
Alignment explanation
Indices: 137078--137298 Score: 289
Period size: 101 Copynumber: 2.2 Consensus size: 98
137068 ATGTTAAAGA
* * *
137078 TGCCAATATGCTGATTCAAGGCCAACGATATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAACGACATTAGACTTAAAGATGAAGGTGCCAATGTACTAATT
* * *
137143 CAAAGCCAGCGATATCGGACTTAAAGATGAACT
66 CAAAGCCAACGACATCGGACTTAAAGATGAACG
* ** * *
137176 TGCCAATGTGCTGATTCAAGGCCAGGGACGTTGGACTTAAAGATGGTTAAGGTGCCAATGTACTA
1 TGCCAATATGCTGATTCAAGGCCAACGACATTAGACTTAAAGAT-G--AAGGTGCCAATGTACTA
* * *
137241 ATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGG
63 ATTCAAAGCCAACGACATCGGACTTAAAGATGAACG
137277 TGCCAATATGCTGATTCAAGGC
1 TGCCAATATGCTGATTCAAGGC
137299 TAGCGATATT
Statistics
Matches: 105, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
98 38 0.36
99 1 0.01
101 66 0.63
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (98 bp):
TGCCAATATGCTGATTCAAGGCCAACGACATTAGACTTAAAGATGAAGGTGCCAATGTACTAATT
CAAAGCCAACGACATCGGACTTAAAGATGAACG
Found at i:137407 original size:87 final size:88
Alignment explanation
Indices: 137228--137490 Score: 375
Period size: 87 Copynumber: 3.0 Consensus size: 88
137218 ATGGTTAAGG
* * * *
137228 TGCCAATGTACTAATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
* **
137293 CAAGGCTAGCGATATTGGGCTCG
66 CAAGGCTAGCGATATTAGGCTTA
* * **
137316 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGT-AAGGTGCCAATATAATGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
* *
137380 TAAGGCCAGCGATATTAGGCTTA
66 CAAGGCTAGCGATATTAGGCTTA
* *
137403 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGATGCCAATATGCTGATC
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
*
137468 CAAGGCTAGCGATATTAGACTTA
66 CAAGGCTAGCGATATTAGGCTTA
137491 AAGGTTCCAC
Statistics
Matches: 153, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
87 78 0.51
88 75 0.49
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (88 bp):
TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
CAAGGCTAGCGATATTAGGCTTA
Found at i:137535 original size:34 final size:34
Alignment explanation
Indices: 137497--137668 Score: 165
Period size: 34 Copynumber: 5.1 Consensus size: 34
137487 CTTAAAGGTT
*
137497 CCACGGAGTTGTGGACTT-ACAGGAAAAAAGGATG
1 CCACGGAGTTGTGGACTTAAAAGG-AAAAAGGATG
* * * *
137531 CCACGGAGGTGTGGGCTTAAAAGGGAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGAAAAAGGATG
* * * *
137565 CCACAGAATCGTGGACTTAAAAGGAAAAATG-TG
1 CCACGGAGTTGTGGACTTAAAAGGAAAAAGGATG
*
137598 CCACTGAGTTGTGGACTTAAAAGGAAAAA-GATG
1 CCACGGAGTTGTGGACTTAAAAGGAAAAAGGATG
** *
137631 CCACGGAACTATGGACTTCGAAAA-GAAAAAGG-TG
1 CCACGGAGTTGTGGACTT--AAAAGGAAAAAGGATG
137665 CCAC
1 CCAC
137669 AAAGTCGTAG
Statistics
Matches: 114, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
32 1 0.01
33 44 0.39
34 60 0.53
35 9 0.08
ACGTcount: A:0.37, C:0.16, G:0.30, T:0.17
Consensus pattern (34 bp):
CCACGGAGTTGTGGACTTAAAAGGAAAAAGGATG
Found at i:137599 original size:33 final size:33
Alignment explanation
Indices: 137507--137669 Score: 127
Period size: 33 Copynumber: 4.8 Consensus size: 33
137497 CCACGGAGTT
* * *
137507 GTGGACTT-ACAGGAAAAAAGGATGCCACGGAGGT-
1 GTGGACTTAAAAGG-AAAAAGG-TGCCACAGA-ATC
* *
137541 GTGGGCTTAAAAGGGAAAAGGGTGCCACAGAATC
1 GTGGACTTAAAA-GGAAAAAGGTGCCACAGAATC
* * * *
137575 GTGGACTTAAAAGGAAAAATGTGCCACTGAGTT
1 GTGGACTTAAAAGGAAAAAGGTGCCACAGAATC
* *
137608 GTGGACTTAAAAGGAAAAAGATGCCACGGAA-C
1 GTGGACTTAAAAGGAAAAAGGTGCCACAGAATC
*
137640 TATGGACTTCGAAAA-GAAAAAGGTGCCACA
1 -GTGGACTT--AAAAGGAAAAAGGTGCCACA
137670 AAGTCGTAGG
Statistics
Matches: 104, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
33 51 0.49
34 39 0.38
35 12 0.12
36 2 0.02
ACGTcount: A:0.39, C:0.15, G:0.30, T:0.17
Consensus pattern (33 bp):
GTGGACTTAAAAGGAAAAAGGTGCCACAGAATC
Found at i:137659 original size:67 final size:67
Alignment explanation
Indices: 137508--137668 Score: 168
Period size: 67 Copynumber: 2.4 Consensus size: 67
137498 CACGGAGTTG
* * * *
137508 TGGACTT-ACAGGAAAAAAGGATGCCACGGAGGTGTGGGCTTAAAAGGGAAAAGGGTGCCACAGA
1 TGGACTTAAAAGG-AAAAAGG-TGCCACGGAGGTGTGGACTTAAAAGGGAAAAAGATGCCACAGA
*
137572 ATCG
64 ATCA
* * * *
137576 TGGACTTAAAAGGAAAAATGTGCCACTGAGTTGTGGACTTAAAA-GGAAAAAGATGCCACGGAA-
1 TGGACTTAAAAGGAAAAAGGTGCCACGGAGGTGTGGACTTAAAAGGGAAAAAGATGCCACAGAAT
137639 CTA
66 C-A
137642 TGGACTTCGAAAA-GAAAAAGGTGCCAC
1 TGGACTT--AAAAGGAAAAAGGTGCCAC
137669 AAAGTCGTAG
Statistics
Matches: 79, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
65 1 0.01
66 23 0.29
67 34 0.43
68 17 0.22
69 4 0.05
ACGTcount: A:0.39, C:0.15, G:0.30, T:0.17
Consensus pattern (67 bp):
TGGACTTAAAAGGAAAAAGGTGCCACGGAGGTGTGGACTTAAAAGGGAAAAAGATGCCACAGAAT
CA
Found at i:137705 original size:30 final size:30
Alignment explanation
Indices: 137671--137763 Score: 116
Period size: 31 Copynumber: 3.0 Consensus size: 30
137661 GGTGCCACAA
*
137671 AGTCGTAGG-CTTTGGGAAGAGATGCCACTG
1 AGTCGT-GGACTTTGAGAAGAGATGCCACTG
*
137701 AGTCGTGGACTTTGAGAAGAGATTGCCACTA
1 AGTCGTGGACTTTGAGAAGAGA-TGCCACTG
* *
137732 ACTCGTGGACTTTGAAGAAAAGATGCCACTG
1 AGTCGTGGACTTTG-AGAAGAGATGCCACTG
137763 A
1 A
137764 CTTGTGGGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
29 2 0.04
30 18 0.33
31 28 0.51
32 7 0.13
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (30 bp):
AGTCGTGGACTTTGAGAAGAGATGCCACTG
Found at i:137738 original size:31 final size:30
Alignment explanation
Indices: 137663--137775 Score: 111
Period size: 31 Copynumber: 3.7 Consensus size: 30
137653 AAGAAAAAGG
* * *
137663 TGCCACAAAGTCGTAGG-CTTTGGGAAGAGA
1 TGCCACTAACTCGT-GGACTTTGAGAAGAGA
* *
137693 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
1 TGCCACTAACTCGTGGACTTTGAGAAGAGA
*
137723 TTGCCACTAACTCGTGGACTTTGAAGAAAAGA
1 -TGCCACTAACTCGTGGACTTTG-AGAAGAGA
* * *
137755 TGCCACTGACTTGTGGGCTTT
1 TGCCACTAACTCGTGGACTTT
137776 TGAAGGTTGT
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
29 2 0.03
30 24 0.34
31 38 0.54
32 7 0.10
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (30 bp):
TGCCACTAACTCGTGGACTTTGAGAAGAGA
Found at i:137801 original size:28 final size:28
Alignment explanation
Indices: 137755--137895 Score: 169
Period size: 28 Copynumber: 5.0 Consensus size: 28
137745 GAAGAAAAGA
137755 TGCCACTGACTTGTGGGCTTTTGAAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAGGT
* * * *
137783 TGTCATTGACTTGTGGGC-TTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTTG-AAGGT
137811 TGCCA-TGACTTGTGGGCTTTTGAAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAGGT
* * *
137838 TGCCACTGACTTATGGGCTTTTGAAAAAGA
1 TGCCACTGACTTGTGGGCTTTTG--AAGGT
*
137868 TGCCACTGACTTGTGGGCTTTGGAAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAGGT
137896 GAGGAATGTC
Statistics
Matches: 94, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
27 24 0.26
28 46 0.49
30 24 0.26
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTTGAAGGT
Found at i:137827 original size:55 final size:57
Alignment explanation
Indices: 137748--137895 Score: 237
Period size: 55 Copynumber: 2.6 Consensus size: 57
137738 GGACTTTGAA
* * *
137748 GAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTTGTCATTGACTTGTGGGC-TTT
1 GAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTATGGGCTTTT
137804 GAAAAGATGCCA-TGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTATGGGCTTTT
1 GAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTATGGGCTTTT
*
137860 GAAAAAGATGCCACTGACTTGTGGGCTTTGGAAGGT
1 G-AAAAGATGCCACTGACTTGTGGGCTTTTGAAGGT
137896 GAGGAATGTC
Statistics
Matches: 85, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
55 37 0.44
56 16 0.19
57 11 0.13
58 21 0.25
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.32
Consensus pattern (57 bp):
GAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTATGGGCTTTT
Found at i:138294 original size:37 final size:37
Alignment explanation
Indices: 138252--138373 Score: 199
Period size: 37 Copynumber: 3.3 Consensus size: 37
138242 AAAGATGAAG
*
138252 CACAAATGCATCATGCAAAATGAAATGTTATGAACGT
1 CACAAATGCATCATGCAAAATAAAATGTTATGAACGT
138289 CACAAATGCATCATGCAAAATAAAATGTTATGAACGT
1 CACAAATGCATCATGCAAAATAAAATGTTATGAACGT
* *
138326 CACAAATGCATCATACAAAATAAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATAAAATGTTATGAACGT
**
138363 CATGAATGCAT
1 CACAAATGCAT
138374 GATTGTGGCA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 80 1.00
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (37 bp):
CACAAATGCATCATGCAAAATAAAATGTTATGAACGT
Found at i:139418 original size:9 final size:9
Alignment explanation
Indices: 139395--139439 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
139385 CATCCGGACC
*
139395 CTTTTTGTT
1 CTTTTTTTT
*
139404 GTTTTTTTT
1 CTTTTTTTT
139413 -TATTTTTTT
1 CT-TTTTTTT
139422 CTTTTTTTT
1 CTTTTTTTT
139431 CTTTTTTTT
1 CTTTTTTTT
139440 TTGTGGTCGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 1 0.03
9 30 0.94
10 1 0.03
ACGTcount: A:0.02, C:0.07, G:0.04, T:0.87
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:139428 original size:17 final size:17
Alignment explanation
Indices: 139406--139438 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
139396 TTTTTGTTGT
139406 TTTTTTTTATTTTTTTC
1 TTTTTTTTATTTTTTTC
*
139423 TTTTTTTTCTTTTTTT
1 TTTTTTTTATTTTTTT
139439 TTTGTGGTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.06, G:0.00, T:0.91
Consensus pattern (17 bp):
TTTTTTTTATTTTTTTC
Found at i:139530 original size:1 final size:1
Alignment explanation
Indices: 139526--139570 Score: 54
Period size: 1 Copynumber: 45.0 Consensus size: 1
139516 CTTTTTGTTG
* * * *
139526 TTTTTTTTTTCTTTTTGTTTTTTCTTTTTTTTCTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
139571 GTGGAGGACA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.00, C:0.07, G:0.02, T:0.91
Consensus pattern (1 bp):
T
Found at i:139541 original size:20 final size:22
Alignment explanation
Indices: 139516--139563 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
139506 CATCCGGACC
139516 CTTTTTG-TTGTT-TTTTTTTT
1 CTTTTTGTTTGTTCTTTTTTTT
*
139536 CTTTTTGTTTTTTCTTTTTTTT
1 CTTTTTGTTTGTTCTTTTTTTT
139558 CTTTTT
1 CTTTTT
139564 TTTTTTTGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 7 0.28
21 4 0.16
22 14 0.56
ACGTcount: A:0.00, C:0.08, G:0.06, T:0.85
Consensus pattern (22 bp):
CTTTTTGTTTGTTCTTTTTTTT
Found at i:139541 original size:121 final size:124
Alignment explanation
Indices: 139324--139565 Score: 420
Period size: 121 Copynumber: 2.0 Consensus size: 124
139314 ATTCTCTCAA
*
139324 GTCGCCCTTGCGAGTTTTCAACCCAAGTTGGCTTAATTATCCAGATGCTTTTACGGGTTTTCATC
1 GTCGCCCTTGCAAGTTTTCAACCCAAGTTGGCTTAATTATCCAGATGCTTTTACGGGTTTTCATC
139389 CGGACCCTTTTTGTTGTTTTTTTTTATTTTTT-TCTTTT-TTTTCTTT-TTTTTTTGTG
66 CGGACCCTTTTTGTTGTTTTTTTTTATTTTTTGTCTTTTCTTTTCTTTCTTTTTTTGTG
139445 GTCGCCCTTGCAAGTTTTCAACCCAAGTTGGCTTAATTATCCAGATGCTTTTACGGGTTTTCATC
1 GTCGCCCTTGCAAGTTTTCAACCCAAGTTGGCTTAATTATCCAGATGCTTTTACGGGTTTTCATC
* *
139510 CGGACCCTTTTTGTTGTTTTTTTTT-TCTTTTTGTTTTTTCTTTTTTTTCTTTTTTT
66 CGGACCCTTTTTGTTGTTTTTTTTTAT-TTTTTGTCTTTTCTTTTCTTTCTTTTTTT
139566 TTTTTGTGGA
Statistics
Matches: 114, Mismatches: 3, Indels: 5
0.93 0.02 0.04
Matches are distributed among these distances:
120 1 0.01
121 94 0.82
122 5 0.04
123 7 0.06
124 7 0.06
ACGTcount: A:0.12, C:0.19, G:0.15, T:0.55
Consensus pattern (124 bp):
GTCGCCCTTGCAAGTTTTCAACCCAAGTTGGCTTAATTATCCAGATGCTTTTACGGGTTTTCATC
CGGACCCTTTTTGTTGTTTTTTTTTATTTTTTGTCTTTTCTTTTCTTTCTTTTTTTGTG
Found at i:139546 original size:13 final size:12
Alignment explanation
Indices: 139526--139570 Score: 65
Period size: 13 Copynumber: 3.8 Consensus size: 12
139516 CTTTTTGTTG
139526 TTTTTTTTTTCT
1 TTTTTTTTTTCT
139538 TTTTGTTTTTTCT
1 TTTT-TTTTTTCT
*
139551 TTTTTTTCTT-T
1 TTTTTTTTTTCT
139562 TTTTTTTTT
1 TTTTTTTTT
139571 GTGGAGGACA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
11 9 0.30
12 9 0.30
13 12 0.40
ACGTcount: A:0.00, C:0.07, G:0.02, T:0.91
Consensus pattern (12 bp):
TTTTTTTTTTCT
Found at i:153547 original size:13 final size:13
Alignment explanation
Indices: 153529--153556 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
153519 ATACAAAGAT
153529 CAATGTATCGATA
1 CAATGTATCGATA
153542 CAATGTATCGATA
1 CAATGTATCGATA
153555 CA
1 CA
153557 TTGAATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:153552 original size:33 final size:33
Alignment explanation
Indices: 153510--153576 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
153500 AAAATTCCCA
153510 AATGTATCGATACAAAG-ATCAATGTATCGATAC
1 AATGTATCGATACAAAGAAT-AATGTATCGATAC
**
153543 AATGTATCGATACATTGAATAATGTATCGATAC
1 AATGTATCGATACAAAGAATAATGTATCGATAC
153576 A
1 A
153577 TTTCCTTGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 29 0.94
34 2 0.06
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (33 bp):
AATGTATCGATACAAAGAATAATGTATCGATAC
Found at i:153621 original size:13 final size:13
Alignment explanation
Indices: 153603--153628 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
153593 CAGGGTAGCT
153603 TTGTATCGATACA
1 TTGTATCGATACA
153616 TTGTATCGATACA
1 TTGTATCGATACA
153629 ACACTTATAT
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):
TTGTATCGATACA
Found at i:155554 original size:14 final size:14
Alignment explanation
Indices: 155537--155582 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
155527 AAAGGTAAAT
155537 TTTTTAAAAAATAA
1 TTTTTAAAAAATAA
*
155551 TTTTTAGAAAAT-A
1 TTTTTAAAAAATAA
155564 -TTTTAATAAAATACA
1 TTTTTAA-AAAATA-A
155579 TTTT
1 TTTT
155583 CCGTTTTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 5 0.19
13 6 0.23
14 11 0.42
15 1 0.04
16 3 0.12
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (14 bp):
TTTTTAAAAAATAA
Found at i:166697 original size:3 final size:3
Alignment explanation
Indices: 166689--166717 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
166679 TATAGTATGA
166689 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
166718 GTAGAATAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Done.