Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2037
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: 186353
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Found at i:1555 original size:2 final size:2
Alignment explanation
Indices: 1548--1573 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1538 GCTTAAGTTT
1548 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
1574 CATAGACACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6134 original size:2 final size:2
Alignment explanation
Indices: 6127--6232 Score: 133
Period size: 2 Copynumber: 52.5 Consensus size: 2
6117 TGATGGGAGT
*
6127 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
** * * *
6168 TA TGA GCC TT TA TA GA TA TA TA TA TA TA TA TA GA TA TA TA TA TA
1 TA T-A -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6212 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
6233 TTGTATATGA
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
1 1 0.01
2 89 0.98
3 1 0.01
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6800 original size:25 final size:25
Alignment explanation
Indices: 6768--6824 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
6758 TGGATAGAGG
6768 GAAAAAAAAGAAGAAAG-TAAAGAAAAA
1 GAAAAAAAAG-A-AAAGTTAAAG-AAAA
*
6795 GAAAAAAAAGAAAAGTTGAAGAAAA
1 GAAAAAAAAGAAAAGTTAAAGAAAA
6820 GAAAA
1 GAAAA
6825 GAAATATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 13 0.46
26 5 0.18
27 10 0.36
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.05
Consensus pattern (25 bp):
GAAAAAAAAGAAAAGTTAAAGAAAA
Found at i:8177 original size:50 final size:50
Alignment explanation
Indices: 8123--8331 Score: 328
Period size: 50 Copynumber: 4.2 Consensus size: 50
8113 TATACTTAGA
* * *
8123 GTCAACAATTATGGTCACCTCCCTCTATTGTCAAAGGTTGATGAACAATC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
*
8173 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
8223 ATCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* * * *
8273 GTCAACAATTATGACCACCTCTCTCTATTGTCAAAGGTTGGTGAAGGATA
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
8323 GTCAACAAT
1 GTCAACAAT
8332 GGCAACAACT
Statistics
Matches: 148, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 148 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (50 bp):
GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:12930 original size:50 final size:50
Alignment explanation
Indices: 12722--12913 Score: 314
Period size: 50 Copynumber: 3.8 Consensus size: 50
12712 TATACTTAGA
* * * *
12722 GTCAACAATTATGGCCACTTCCCTCTATTGTCAAAGGTTGATGAACAATC
1 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
*
12772 GTCAACAATTATGGTCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
12822 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
*
12872 GTCAACAATTATGACCACCT-CTCTCTATTGTCAAAGGTTGGT
1 GTCAACAATTATGGCCACCTCCT-TCTATTGTCAAAGGTTGGT
12914 AAAGGATAAT
Statistics
Matches: 134, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
49 2 0.01
50 132 0.99
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (50 bp):
GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:13752 original size:29 final size:26
Alignment explanation
Indices: 13703--13756 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 26
13693 TCATTAAGTA
*
13703 ATTTTAATTTTTTATAAAATTAATTG
1 ATTTTAAATTTTTATAAAATTAATTG
13729 ATTTTAACATTTTTATCATAAATTAATT
1 ATTTTAA-ATTTTTAT-A-AAATTAATT
13757 TTAACTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 7 0.29
27 7 0.29
28 1 0.04
29 9 0.38
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.56
Consensus pattern (26 bp):
ATTTTAAATTTTTATAAAATTAATTG
Found at i:13889 original size:15 final size:16
Alignment explanation
Indices: 13853--13892 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
13843 TTTAATGTTT
*
13853 ATAAAATTTTTAATTAA
1 ATAAAA-TTATAATTAA
13870 ATAAAATTATAATT-A
1 ATAAAATTATAATTAA
13885 ATAAAATT
1 ATAAAATT
13893 TCTTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 7 0.32
17 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAAATTATAATTAA
Found at i:14091 original size:18 final size:18
Alignment explanation
Indices: 14061--14098 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
14051 TATGAATATG
*
14061 TAAATATTTATAT-TAAA
1 TAAATATTAATATATAAA
14078 TAAATTATTAATATATAAA
1 TAAA-TATTAATATATAAA
14097 TA
1 TA
14099 TTTATATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 8 0.44
19 6 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATATTAATATATAAA
Found at i:14722 original size:23 final size:22
Alignment explanation
Indices: 14682--14724 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
14672 ATGAATTGAG
* *
14682 ATATAATATAAACTCAACATTT
1 ATATAATAAAAACACAACATTT
14704 ATATATATAAAAACACAACAT
1 ATATA-ATAAAAACACAACAT
14725 GAAAAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (22 bp):
ATATAATAAAAACACAACATTT
Found at i:15070 original size:19 final size:18
Alignment explanation
Indices: 15048--15086 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
15038 TTCTCTTTGT
* *
15048 TTTCTTTCTTTTTCTCTCC
1 TTTCCTTCTTTCTCTC-CC
15067 TTTCCTTCTTTCTCTCCC
1 TTTCCTTCTTTCTCTCCC
15085 TT
1 TT
15087 CACGAATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTCCTTCTTTCTCTCCC
Found at i:15386 original size:2 final size:2
Alignment explanation
Indices: 15379--15404 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15369 TCAATATCTA
15379 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
15405 TTTGAACTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15429 original size:11 final size:11
Alignment explanation
Indices: 15413--15456 Score: 79
Period size: 11 Copynumber: 4.0 Consensus size: 11
15403 ATTTTGAACT
15413 ACATGAATATA
1 ACATGAATATA
15424 ACATGAATATA
1 ACATGAATATA
*
15435 ACAAGAATATA
1 ACATGAATATA
15446 ACATGAATATA
1 ACATGAATATA
15457 CGAAATTATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.57, C:0.09, G:0.09, T:0.25
Consensus pattern (11 bp):
ACATGAATATA
Found at i:15732 original size:15 final size:16
Alignment explanation
Indices: 15707--15736 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15697 TATATATATT
15707 TTTCTCTTTTTCTTTC
1 TTTCTCTTTTTCTTTC
15723 TTTC-CTTTTTCTTT
1 TTTCTCTTTTTCTTT
15737 TTATTTCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTCTCTTTTTCTTTC
Found at i:18051 original size:19 final size:19
Alignment explanation
Indices: 18020--18062 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
18010 TATATGTTAT
*
18020 TAAT-TATATTTTATAATA
1 TAATATATAATTTATAATA
18038 TAATATATAATTTATAATA
1 TAATATATAATTTATAATA
*
18057 AAATAT
1 TAATAT
18063 GTATTTACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATATATAATTTATAATA
Found at i:18471 original size:2 final size:2
Alignment explanation
Indices: 18464--18499 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
18454 TCATGCATAC
18464 AT AT AT 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 AT AT AT
18500 CTAAGCACTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19529 original size:19 final size:17
Alignment explanation
Indices: 19505--19541 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
19495 TATTATATAA
19505 TAATTAAATATATATTTAT
1 TAATTAAAT-TA-ATTTAT
19524 TAATTAAATTAATTTAT
1 TAATTAAATTAATTTAT
19541 T
1 T
19542 TGTTATACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 2 0.11
19 9 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAATTAAATTAATTTAT
Found at i:27337 original size:32 final size:32
Alignment explanation
Indices: 27292--27698 Score: 554
Period size: 32 Copynumber: 12.8 Consensus size: 32
27282 TTTGAAAAGA
*
27292 TGCCACCGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
* *
27324 TGCCACCACCTTGTGTGGGCTTTGAAATGAGT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
* ** *
27356 TCCCACTGACTTGTGTGGGCTTTCAAATGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
*
27388 TGCCACCAACTTGTGTGGGCTTTGAAATAGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
**
27420 TGCCACCAA-TCTGTGTGGGCTTTGAAATGACT
1 TGCCACCAACT-TGTGTGGGCTTTGAAATGGGT
* *
27452 TGCCACCAACTTGTGTAGGCTTTAAAATGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
**
27484 TGCCACCAACTTGTGTGGGCTTTGAAATAAGT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
27516 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
* *
27548 TGCCACCAACTTGTGTGGGCTTTCAAATGAGT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
* ** * *
27580 TACCACTGACTTATGTGGGCTTTGAAATAGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
27612 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
*
27644 TGCCACCAACTTGTGTGGGCTTTGAAA--GGA
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
**
27674 TGCCACTGAC-T-TGTGGGCTTTGAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAA
27699 GAGTGCCACT
Statistics
Matches: 329, Mismatches: 44, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
28 14 0.04
29 1 0.00
30 10 0.03
31 1 0.00
32 302 0.92
33 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (32 bp):
TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
Found at i:27795 original size:85 final size:85
Alignment explanation
Indices: 27652--27813 Score: 297
Period size: 85 Copynumber: 1.9 Consensus size: 85
27642 GTTGCCACCA
* *
27652 ACTTGTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTG
1 ACTTGCGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTG
27717 GGCTTGAAAAGGTACCACTG
66 GGCTTGAAAAGGTACCACTG
27737 ACTTGCGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTG
1 ACTTGCGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTG
*
27802 GGCTTTAAAAGG
66 GGCTTGAAAAGG
27814 GTGCCACAAA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 74 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (85 bp):
ACTTGCGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTG
GGCTTGAAAAGGTACCACTG
Found at i:27839 original size:28 final size:28
Alignment explanation
Indices: 27799--28086 Score: 307
Period size: 27 Copynumber: 10.3 Consensus size: 28
27789 CCACTGACTC
* * * **
27799 GTGGGCTTTAAAAGGGTGCCACAAAGTT
1 GTGGACTTAAAAAGGATGCCACGGAGTT
*
27827 ATGGACTTAAAAAGG-TGCCACGGAGTT
1 GTGGACTTAAAAAGGATGCCACGGAGTT
*
27854 GTGGACTT-AAAAGGGTGCCACGGAGTT
1 GTGGACTTAAAAAGGATGCCACGGAGTT
* *
27881 GTGGACTTTAAAAGGATGCCACAGAGTT
1 GTGGACTTAAAAAGGATGCCACGGAGTT
27909 GTGGACTT-AAAAGGATGCCACGGAGTT
1 GTGGACTTAAAAAGGATGCCACGGAGTT
* * * *
27936 GTGGACTTTAAAAAGAAATGCCACTGAATC
1 GTGGAC-TTAAAAAG-GATGCCACGGAGTT
* *
27966 GTGGACTTTAAAA-GAGTGCCACGAAGTT
1 GTGGACTTAAAAAGGA-TGCCACGGAGTT
* *
27994 GTGGACTTTAAAAGGATGCCATGGAGTT
1 GTGGACTTAAAAAGGATGCCACGGAGTT
*
28022 GTGGACTT-AAAAGGATACCACGGAGTT
1 GTGGACTTAAAAAGGATGCCACGGAGTT
* * *
28049 GTGGACTTTAAAAAGAAATGCCACTGAATT
1 GTGGAC-TTAAAAAG-GATGCCACGGAGTT
28079 GTGGACTT
1 GTGGACTT
28087 TGAAGAGGTC
Statistics
Matches: 223, Mismatches: 27, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.03
27 85 0.38
28 80 0.36
29 20 0.09
30 32 0.14
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (28 bp):
GTGGACTTAAAAAGGATGCCACGGAGTT
Found at i:27901 original size:55 final size:55
Alignment explanation
Indices: 27806--28086 Score: 348
Period size: 55 Copynumber: 5.0 Consensus size: 55
27796 CTCGTGGGCT
** * *
27806 TTAAAAGGGTGCCACAAAGTTATGGACTTAAAAAGG-TGCCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC
*
27860 TTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC
* * * * *
27915 TTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAAGAAATGCCACTGAATCGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGACTTT-AAAAG-GATGCCACGGAGTTGTGGAC
* * *
27972 TTTAAAAGAGTGCCACGAAGTTGTGGACTTTAAAAGGATGCCATGGAGTTGTGGAC
1 -TTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC
* * * * *
28028 TTAAAAGGATACCACGGAGTTGTGGACTTTAAAAAGAAATGCCACTGAATTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGACTTT-AAAAG-GATGCCACGGAGTTGTGGAC
28085 TT
1 TT
28087 TGAAGAGGTC
Statistics
Matches: 195, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
54 32 0.16
55 72 0.37
56 25 0.13
57 39 0.20
58 27 0.14
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.25
Consensus pattern (55 bp):
TTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC
Found at i:27995 original size:113 final size:113
Alignment explanation
Indices: 27806--28087 Score: 419
Period size: 113 Copynumber: 2.5 Consensus size: 113
27796 CTCGTGGGCT
* ** * * * *
27806 TTAAAAGGGTGCCACAAAGTTATGGAC-TTAAAAAG--GTGCCACGGAGTTGTGGAC-TTAAAAG
1 TTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAAGAAATGCCACTGAATTGTGGACTTTAAAAG
* *
27867 GGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGAC
66 AGTGCCACGAAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGAC
*
27915 TTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAAGAAATGCCACTGAATCGTGGACTTTAAAAG
1 TTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAAGAAATGCCACTGAATTGTGGACTTTAAAAG
**
27980 AGTGCCACGAAGTTGTGGACTTTAAAAGGATGCCATGGAGTTGTGGAC
66 AGTGCCACGAAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGAC
*
28028 TTAAAAGGATACCACGGAGTTGTGGACTTTAAAAAGAAATGCCACTGAATTGTGGACTTT
1 TTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAAGAAATGCCACTGAATTGTGGACTTT
28088 GAAGAGGTCA
Statistics
Matches: 155, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
109 23 0.15
110 8 0.05
112 15 0.10
113 109 0.70
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.25
Consensus pattern (113 bp):
TTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAAGAAATGCCACTGAATTGTGGACTTTAAAAG
AGTGCCACGAAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGAC
Found at i:29434 original size:24 final size:24
Alignment explanation
Indices: 29408--29452 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
29398 TTTTGCACTT
*
29408 TTTTTCTTTTCA-TTTTTTTGTGC
1 TTTTGCTTTTCACTTTTTTTGTGC
*
29431 TTTTGCTTTTGACTTTTTTTGT
1 TTTTGCTTTTCACTTTTTTTGT
29453 CATTTTGAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.04, C:0.11, G:0.11, T:0.73
Consensus pattern (24 bp):
TTTTGCTTTTCACTTTTTTTGTGC
Found at i:36488 original size:20 final size:19
Alignment explanation
Indices: 36459--36533 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
36449 AAAAAGACAT
36459 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
36478 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
36499 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
36519 AATGTATCGATACAT
1 AATGTATCGATACAT
36534 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:36516 original size:40 final size:39
Alignment explanation
Indices: 36456--36533 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
36446 GGTAAAAAGA
*
36456 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
36495 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
36534 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:38213 original size:20 final size:19
Alignment explanation
Indices: 38167--38223 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
38157 TTGTATCGAT
* *
38167 ACATTGTATCAATACATGT
1 ACATTGTATCGATACATGG
*
38186 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
38205 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
38224 AAACTGGTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:43465 original size:13 final size:13
Alignment explanation
Indices: 43447--43472 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43437 AATTTTTTTG
43447 TGTATCGATACAT
1 TGTATCGATACAT
43460 TGTATCGATACAT
1 TGTATCGATACAT
43473 ACTTGGTGTA
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:45577 original size:21 final size:20
Alignment explanation
Indices: 45548--45590 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
45538 GACTAGTGTG
*
45548 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
* *
45569 GGGAGTGCCGGTCGTGACCT
1 GGGACTGCCGGTCGCGACCT
45589 GG
1 GG
45591 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:49987 original size:21 final size:21
Alignment explanation
Indices: 49958--50002 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
49948 AAGTTTTTAT
*
49958 TTTTCTTAGCTAA-TTCATTA
1 TTTTCTTAGCCAAGTTCATTA
*
49978 TTTTCATTAGCCAAGTTCTTTA
1 TTTTC-TTAGCCAAGTTCATTA
50000 TTT
1 TTT
50003 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 7 0.33
22 9 0.43
ACGTcount: A:0.22, C:0.16, G:0.07, T:0.56
Consensus pattern (21 bp):
TTTTCTTAGCCAAGTTCATTA
Found at i:50002 original size:22 final size:21
Alignment explanation
Indices: 49947--50002 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
49937 ATGAATCATG
49947 CAAGTT-TTTATTTTTCTTAGC
1 CAAGTTCTTTA-TTTTCTTAGC
* *
49968 TAA-TTCATTATTTTCATTAGC
1 CAAGTTCTTTATTTTC-TTAGC
49989 CAAGTTCTTTATTT
1 CAAGTTCTTTATTT
50003 CAACTTGCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 7 0.25
21 12 0.43
22 9 0.32
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.55
Consensus pattern (21 bp):
CAAGTTCTTTATTTTCTTAGC
Found at i:52233 original size:13 final size:13
Alignment explanation
Indices: 52215--52240 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52205 AATTTTTTTG
52215 TGTATCGATACAT
1 TGTATCGATACAT
52228 TGTATCGATACAT
1 TGTATCGATACAT
52241 ACTTGGTGTA
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:56189 original size:20 final size:19
Alignment explanation
Indices: 56160--56235 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 19
56150 AAAAAGACAT
56160 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
56179 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* * *
56200 CATGTATTGATATATTGAAA
1 AATGTATCGATACATTG-AA
56220 AATGTATCGATACATT
1 AATGTATCGATACATT
56236 TGGATAAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.36
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:56217 original size:40 final size:39
Alignment explanation
Indices: 56157--56235 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 39
56147 GGTAAAAAGA
*
56157 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* * *
56196 CATACATGTATTGATATATTGAAAAATGTATCGATACATT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACATT
56236 TGGATAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:57876 original size:20 final size:20
Alignment explanation
Indices: 57838--57876 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
57828 TTACAAATTT
57838 CTTCATTTTCACTTCAAAAGA
1 CTTCATTTTCAC-TCAAAAGA
57859 CTTCATTATTCA-TCAAAA
1 CTTCATT-TTCACTCAAAA
57877 TTATCAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.38
Consensus pattern (20 bp):
CTTCATTTTCACTCAAAAGA
Found at i:60219 original size:13 final size:13
Alignment explanation
Indices: 60201--60226 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60191 ACACACCCAG
60201 ATGTATCGATACA
1 ATGTATCGATACA
60214 ATGTATCGATACA
1 ATGTATCGATACA
60227 TGTTCATTGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:60257 original size:20 final size:20
Alignment explanation
Indices: 60211--60267 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 20
60201 ATGTATCGAT
*
60211 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
*
60230 TC-ATTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
60249 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
60268 AAACTGGCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 16 0.48
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:60333 original size:13 final size:13
Alignment explanation
Indices: 60312--60341 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
60302 CGATACATGG
*
60312 TACACTGTATCGA
1 TACAATGTATCGA
60325 TACAATGTATCGA
1 TACAATGTATCGA
60338 TACA
1 TACA
60342 TGATGAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:60361 original size:33 final size:33
Alignment explanation
Indices: 60297--60361 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
60287 TACCATTGTT
* * *
60297 TGTATCGATACATGGTACACTGTATCGATACAA
1 TGTATCGATACATGATACACTATATCAATACAA
*
60330 TGTATCGATACATGATGA-ATTATATCAATACA
1 TGTATCGATACATGAT-ACACTATATCAATACA
60362 TTGCTTCTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGATACACTATATCAATACAA
Found at i:62514 original size:13 final size:13
Alignment explanation
Indices: 62463--62507 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
62453 AACAATAAGA
62463 ATTACTCTTCAAT
1 ATTACTCTTCAAT
* *
62476 GTTACTCTCCAAT
1 ATTACTCTTCAAT
*
62489 ATTGCTCTTCAAT
1 ATTACTCTTCAAT
62502 ATTACT
1 ATTACT
62508 TTCCAATTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.27, C:0.24, G:0.04, T:0.44
Consensus pattern (13 bp):
ATTACTCTTCAAT
Found at i:67596 original size:29 final size:30
Alignment explanation
Indices: 67551--67623 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 30
67541 TATAAACTTT
* *
67551 ACAACTCTTTATATTTT-AAAGCTAAGATA
1 ACAACTTTTTATCTTTTCAAAGCTAAGATA
* *
67580 ACAACTTTTTATCTTTTCTAGGCTAAGATA
1 ACAACTTTTTATCTTTTCAAAGCTAAGATA
67610 AC--CTTTTTA-CTTTT
1 ACAACTTTTTATCTTTT
67624 TAATGCTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 5 0.13
28 7 0.18
29 15 0.38
30 12 0.31
ACGTcount: A:0.32, C:0.16, G:0.07, T:0.45
Consensus pattern (30 bp):
ACAACTTTTTATCTTTTCAAAGCTAAGATA
Found at i:67634 original size:28 final size:29
Alignment explanation
Indices: 67564--67626 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
67554 ACTCTTTATA
67564 TTTTAAAGCTAAGATAACAACTTTTTATCT
1 TTTTAAAGCTAAGATAAC-ACTTTTTATCT
*
67594 TTTCT-AGGCTAAGATAAC-CTTTTTA-CT
1 TTT-TAAAGCTAAGATAACACTTTTTATCT
67621 TTTTAA
1 TTTTAA
67627 TGCTTAAGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
26 1 0.03
27 6 0.20
28 7 0.23
30 15 0.50
31 1 0.03
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.46
Consensus pattern (29 bp):
TTTTAAAGCTAAGATAACACTTTTTATCT
Found at i:72748 original size:20 final size:20
Alignment explanation
Indices: 72719--72793 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
72709 AAAAAGACAT
*
72719 AATGTATCGATACATTGCAG
1 AATGTATCGATACATTGCAA
*
72739 AATATATCGATACATT-CATA
1 AATGTATCGATACATTGCA-A
* * *
72759 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGCAA
72779 AATGTATCGATACAT
1 AATGTATCGATACAT
72794 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.93
21 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGCAA
Found at i:72787 original size:40 final size:39
Alignment explanation
Indices: 72716--72793 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
72706 GGTAAAAAGA
* *
72716 CATAATGTATCGATACATTGCAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
72755 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
72794 CTGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:73427 original size:28 final size:28
Alignment explanation
Indices: 73382--75108 Score: 1009
Period size: 28 Copynumber: 60.4 Consensus size: 28
73372 CTAACTTCTA
*
73382 TGGGCTTT-AAAGAGATGCCACTGACTCG
1 TGGGCTTTGAAAG-GATGCCACTGACTTG
* *
73410 TTGGCTTTGAAAGAATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
73438 TGGGCTTTGGAAGGATGCCACTGACTCG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * *
73466 TGGGCTTTGAAAAGTTACCACTGACTCG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * *
73494 TGGGCTTTGAAAAGTTACCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * *
73522 TGGGCTTGGAAAAGATGCCACCGACTTGTG
1 TGGGCTTTGAAAGGATGCCACTGAC-T-TG
* * **
73552 TGGGCTTTGAAATGGGTTACCACCAACTTGTG
1 TGGGCTTTGAAA--GGATGCCACTGAC-T-TG
*
73584 TGGGCTTTGAAATGAGTTGCCA-TCGACTTGTG
1 TGGGCTTTGAAA-G-GATGCCACT-GAC-T-TG
* * **
73616 TGGGCTTTCAAATGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAAA--GGATGCCACTGAC-T-TG
* *
73648 TGGGCTTTGAAATAGGTTGCCAC-CAGCTTGTG
1 TGGGCTTTG-AA-AGGATGCCACTGA-C-T-TG
* * **
73680 TGGGCTTTGAAATGGGTTACCACCAACTTGTG
1 TGGGCTTTGAAA--GGATGCCACTGAC-T-TG
* * *
73712 TGGGCTTTCAAATGAGTTGCCACCGACTTGTG
1 TGGGCTTTGAAA-G-GATGCCACTGAC-T-TG
*
73744 TGGGCTTTGAAAGGGTGCCA-TCGACTTGTG
1 TGGGCTTTGAAAGGATGCCACT-GAC-T-TG
* * *
73774 TGGGCTTTGAAAAGATACCACCGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
73802 TGGGCTTTGAAATTGGCTGCCACCGACTTGTG
1 TGGGCTTTGAAA--GGATGCCACTGAC-T-TG
*
73834 TGGGCTTTG-AAGTGATGCCACTAACTTG
1 TGGGCTTTGAAAG-GATGCCACTGACTTG
73862 TGGGCTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
73890 TGGGCTTTGAAATTGGCTGCCACCGACTTGTG
1 TGGGCTTTGAAA--GGATGCCACTGAC-T-TG
*
73922 TGGGCTTTG-AAGTGATGCCACTAACTTG
1 TGGGCTTTGAAAG-GATGCCACTGACTTG
73950 TGGGCTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
73978 TGGGCTTTGAAATGG-TGCCACTGACTTG
1 TGGGCTTTGAAA-GGATGCCACTGACTTG
* *
74006 TGGGCTTTGAAATGGGCTGCCACCGACTTGTG
1 TGGGCTTTGAAA--GGATGCCACTGAC-T-TG
*
74038 TGGGCTTTG-AAGTGATGCCACTAACTTG
1 TGGGCTTTGAAAG-GATGCCACTGACTTG
*
74066 TGGGCTTTGAAAAGATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
74094 TGGGCTTTGAAATGG-TGCCACTGACTTG
1 TGGGCTTTGAAA-GGATGCCACTGACTTG
*
74122 TGGGCTTTGAAAGGATACCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
74150 TGGGCTTTGAAATGG-TGCCACTGACTTG
1 TGGGCTTTGAAA-GGATGCCACTGACTTG
*
74178 TGGGCTTTGAAAGGATGCCACTAACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
74206 TGTGCTTTGAAATGGACTGCCACCGACTTGTG
1 TGGGCTTTGAAA-GGA-TGCCACTGAC-T-TG
*
74238 TGGGCTTTG-AAGTGATGCCACTAACTTG
1 TGGGCTTTGAAAG-GATGCCACTGACTTG
*
74266 TGGGCTTTGAAAGGATGTCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
74294 TGGGCTTTGAAATGG-TGCCACTGACTTG
1 TGGGCTTTGAAA-GGATGCCACTGACTTG
*
74322 TGGGCTTTGAAAGGATACCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
74350 TGGGCTTTGAAAAGATGCCACTGACTTA
1 TGGGCTTTGAAAGGATGCCACTGACTTG
*
74378 TGGGCTTTTAGAAGGATGCCACTGACTTG
1 TGGGCTTTGA-AAGGATGCCACTGACTTG
* *
74407 TGGGCTTTGAAAGG-TGCCACAGATTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * *
74434 TGGAC-TT-ACAAGGATGCCACGGAGTTG
1 TGGGCTTTGA-AAGGATGCCACTGACTTG
* * * *
74461 TGGAC-TTAAAAGTG-TGCCACAGAGTTG
1 TGGGCTTTGAAAG-GATGCCACTGACTTG
* ** * * *
74488 TGGACTTAAAAATG-TGCCACGGAGTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * *
74515 TGGAC-TTAAAAGGGTGCCA-TAGAGTTG
1 TGGGCTTTGAAAGGATGCCACT-GACTTG
* * * *
74542 TGGAC-TTAAAAGGGTGCCA-TAGAGTTG
1 TGGGCTTTGAAAGGATGCCACT-GACTTG
* * * * * * *
74569 TTGAC-TTAAAAGGGTGTCACGGAGTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * * * *
74596 TGGACTGTAAAAGGGTGCCACAGAGTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * *
74624 TGGACTTTAAAAGGATGCCACGGAGTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * * *
74652 TGGAC-TTAAAAGGATGTCACGGAGTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * *
74679 TGGACTTTAAAAGGATGCCACGGAGTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * ** *
74707 TGGGC-TTAAAAGGATGCCACGGGGTTA
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * * **
74734 TGGACTTTAAAAAGAAATGCCACTGAATCA
1 TGGGCTTT-GAAAG-GATGCCACTGACTTG
* * * * *
74764 TGGACTTT-AAAAGAGTTCCA-AGAAGTTG
1 TGGGCTTTGAAAGGA-TGCCACTG-ACTTG
* * * *
74792 TGGAC-TTAAAAGGGTGCCA-TGGAGTTG
1 TGGGCTTTGAAAGGATGCCACT-GACTTG
* * ** * *
74819 TGGAC-TTAAAAGGATGCCAAGGAGTTA
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * * **
74846 TGGACTTTAAAAGGGTGCCACGGAGGTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * * *
74874 TGGACTTTAAAAGGGTGCCACAGAGTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * ** *
74902 TGGACTTT-AAAGGGTGCCACAAAATTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * * *
74929 TGGAC-TTAAAAGGGTGCCACGGAGTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * * * *
74956 TGGACTCTAAAAGGGTGCCACAGAGTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * * *
74984 TGGACTTTAAAAGGGTGCCACAGAGTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * *
75012 TGGACTTTAAAAGGATGCCACGGAGTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * *
75040 TGGAC-TTAAAAGGATGCCACAGAGTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * * *
75067 TGGACTTTAAAAGGAAATGCCATTGAGTCG
1 TGGGCTTTGAAAGG--ATGCCACTGACTTG
*
75097 TGGACTTTGAAA
1 TGGGCTTTGAAA
75109 AGGTCACAGT
Statistics
Matches: 1472, Mismatches: 153, Indels: 146
0.83 0.09 0.08
Matches are distributed among these distances:
25 1 0.00
26 14 0.01
27 302 0.21
28 712 0.48
29 66 0.04
30 162 0.11
31 20 0.01
32 190 0.13
33 4 0.00
34 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.28
Consensus pattern (28 bp):
TGGGCTTTGAAAGGATGCCACTGACTTG
Found at i:73983 original size:116 final size:112
Alignment explanation
Indices: 73382--74463 Score: 961
Period size: 116 Copynumber: 9.3 Consensus size: 112
73372 CTAACTTCTA
* * * *
73382 TGGGCTTT-AAAGAGATGCCACTGACTCGTTGGCTTTGAAAGAATGCCACTGACTTGTGGGCTTT
1 TGGGCTTTGAAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACCGACTTGTGGGCTTT
* * * * *
73446 GGAAG-GATGCCACTGACTCGTGGGCTTTGAAAAGTTACCACTGACTCG
65 -GAAGTGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTG
* * * * *
73494 TGGGCTTTGAAAAGTTACCACTGACTTGTGGGCTTGGAAAAGATGCCACCGACTTGTGTGGGCTT
1 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACCGAC-T-TGTGGGCTT
* * * ** *
73559 TGAAATGGGTTACCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCA-TCGACTTGTG
64 TG-AA-GTGATGCCACTGAC-T-TGTGGGCTTTGAAA-G-GATGCCACT-GAC-T-TG
* * ** *
73616 TGGGCTTTCAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATAGGTTGCCACC-AGCTTGTG
1 TGGGCTTTGAAA--GGATGCCACTGAC-T-TGTGGGCTTTG-AA-AGGATGCCACCGA-C-T-TG
* * * ** * * *
73680 TGGGCTTTGAAATGGGTTACCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGTG
57 TGGGCTTTG-AA-GTGATGCCACTGAC-T-TGTGGGCTTTGAAA-G-GATGCCACTGAC-T-TG
* * *
73744 TGGGCTTTGAAAGGGTGCCA-TCGACTTGTGTGGGCTTTGAAAAGATACCACCGACTTGTGGGCT
1 TGGGCTTTGAAAGGATGCCACT-GAC-T-TGTGGGCTTTGAAAGGATGCCACCGACTTGTGGGCT
* * * *
73808 TTGAAATTGGCTGCCACCGACTTGTGTGGGCTTTG-AAGTGATGCCACTAACTTG
63 TTG-AAGT-GATGCCACTGAC-T-TGTGGGCTTTGAAAG-GATGCCACTGACTTG
*
73862 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAATTGGCTGCCACCGACTTGTGTGGGC
1 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAA--GGATGCCACCGAC-T-TGTGGGC
*
73927 TTTGAAGTGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTG
62 TTTGAAGTGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTG
*
73978 TGGGCTTTGAAATGG-TGCCACTGACTTGTGGGCTTTGAAATGGGCTGCCACCGACTTGTGTGGG
1 TGGGCTTTGAAA-GGATGCCACTGACTTGTGGGCTTTGAAA--GGATGCCACCGAC-T-TGTGGG
* *
74042 CTTTGAAGTGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGACTTG
61 CTTTGAAGTGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTG
* *
74094 TGGGCTTTGAAATGG-TGCCACTGACTTGTGGGCTTTGAAAGGATACCACTGACTTGTGGGCTTT
1 TGGGCTTTGAAA-GGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACCGACTTGTGGGCTTT
* * *
74158 GAAATGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTG
65 GAAGTGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTG
* * **
74206 TGTGCTTTGAAATGGACTGCCACCGACTTGTGTGGGCTTTG-AAGTGATGCCACTAACTTGTGGG
1 TGGGCTTTGAAA-GGA-TGCCACTGAC-T-TGTGGGCTTTGAAAG-GATGCCACCGACTTGTGGG
*
74270 CTTTGAAAG-GATGTCACTGACTTGTGGGCTTTGAAATGG-TGCCACTGACTTG
61 CTTTG-AAGTGATGCCACTGACTTGTGGGCTTTGAAA-GGATGCCACTGACTTG
* * * *
74322 TGGGCTTTGAAAGGATACCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTATGGGCTTTT
1 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACCGACTTGTGGGC-TTT
* *
74387 AGAAG-GATGCCACTGACTTGTGGGCTTTGAAAGG-TGCCACAGATTTG
65 -GAAGTGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTG
* * *
74434 TGGAC-TT-ACAAGGATGCCACGGAGTTGTGG
1 TGGGCTTTGA-AAGGATGCCACTGACTTGTGG
74464 ACTTAAAAGT
Statistics
Matches: 844, Mismatches: 84, Indels: 85
0.83 0.08 0.08
Matches are distributed among these distances:
110 1 0.00
111 20 0.02
112 153 0.18
113 41 0.05
114 40 0.05
115 8 0.01
116 279 0.33
117 12 0.01
118 56 0.07
119 7 0.01
120 30 0.04
121 3 0.00
122 48 0.06
123 1 0.00
124 18 0.02
125 4 0.00
126 33 0.04
127 3 0.00
128 87 0.10
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (112 bp):
TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACCGACTTGTGGGCTTTG
AAGTGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTG
Found at i:74630 original size:55 final size:55
Alignment explanation
Indices: 74389--75080 Score: 806
Period size: 55 Copynumber: 12.6 Consensus size: 55
74379 GGGCTTTTAG
* * * * * * * *
74389 AAGGATGCCACTGACTTGTGGGCTTTGAAA-GGTGCCACAGATTTGTGGACTTAC
1 AAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAA
* * * *
74443 AAGGATGCCACGGAGTTGTGGAC-TTAAAAGTGTGCCACAGAGTTGTGGACTTAA
1 AAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAA
** * **
74497 AAATGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCATAGAGTTGTGGACTTAA
1 AAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAA
* * *
74551 AAGGGTGCCATAGAGTTGTTGAC-TTAAAAGGGTGTCACGGAGTTGTGGACTGTAA
1 AAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACT-TAA
*
74606 AAGGGTGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAA
1 AAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAA
* * * * *
74661 AAGGATGTCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGGCTTAA
1 AAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAA
* * * * ** * * **
74716 AAGGATGCCACGGGGTTATGGACTTTAAAAAGAAATGCCACTGAATCATGGACTTTAA
1 AAGGGTGCCACAGAGTTGTGGACTTT-AAAAG-GGTGCCACGGAGTTGTGGAC-TTAA
* * *
74774 AAGAGTTCCA-AGAAGTTGTGGAC-TTAAAAGGGTGCCATGGAGTTGTGGACTTAA
1 AAGGGTGCCACAG-AGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAA
* * *
74828 AAGGATGCCA-AGGAGTTATGGACTTTAAAAGGGTGCCACGGAGGTGTGGACTTTAA
1 AAGGGTGCCACA-GAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAA
** *
74884 AAGGGTGCCACAGAGTTGTGGACTTT-AAAGGGTGCCACAAAATTGTGGACTTAA
1 AAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAA
* * *
74938 AAGGGTGCCACGGAGTTGTGGACTCTAAAAGGGTGCCACAGAGTTGTGGACTTTAA
1 AAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAA
*
74994 AAGGGTGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAA
1 AAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAA
*
75049 AAGGATGCCACAGAGTTGTGGACTTTAAAAGG
1 AAGGGTGCCACAGAGTTGTGGACTTTAAAAGG
75081 AAATGCCATT
Statistics
Matches: 554, Mismatches: 71, Indels: 25
0.85 0.11 0.04
Matches are distributed among these distances:
53 5 0.01
54 182 0.33
55 217 0.39
56 113 0.20
57 18 0.03
58 19 0.03
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.25
Consensus pattern (55 bp):
AAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAA
Found at i:75081 original size:55 final size:55
Alignment explanation
Indices: 74275--75081 Score: 785
Period size: 55 Copynumber: 14.6 Consensus size: 55
74265 GTGGGCTTTG
* * * * * * * * *
74275 AAAGGATGTCACTGACTTGTGGGCTTTGAAATGG-TGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACAGAGTTGTGGACTTT-AAAAGGATGCCACGGAGTTGTGGAC-TTA
* * * * * * * *
74331 AAAGGATACCACTGACTTGTGGGCTTTGAAAA-GATGCCACTGACTTATGGGCTTTTA
1 AAAGGATGCCACAGAGTTGTGGACTTT-AAAAGGATGCCACGGAGTTGTGGAC--TTA
* * * * * * *
74388 GAAGGATGCCACTGACTTGTGGGCTTTGAAAGG-TGCCACAGATTTGTGGACTTA
1 AAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTA
* * *
74442 CAAGGATGCCACGGAGTTGTGGAC-TTAAAAGTG-TGCCACAGAGTTGTGGACTTAA
1 AAAGGATGCCACAGAGTTGTGGACTTTAAAAG-GATGCCACGGAGTTGTGGACTT-A
* * * **
74497 AAATG-TGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCATAGAGTTGTGGACTTA
1 AAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTA
* * * * *
74550 AAAGGGTGCCATAGAGTTGTTGAC-TTAAAAGGGTGTCACGGAGTTGTGGACTGTA
1 AAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACT-TA
*
74605 AAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTA
1 AAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTA
* * *
74660 AAAGGATGTCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGGCTTA
1 AAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTA
* * * * * * **
74715 AAAGGATGCCACGGGGTTATGGACTTTAAAAAGAAATGCCACTGAATCATGGACTTTA
1 AAAGGATGCCACAGAGTTGTGGACTTT-AAAAG-GATGCCACGGAGTTGTGGAC-TTA
* * *
74773 AAA-GAGTTCCA-AGAAGTTGTGGAC-TTAAAAGGGTGCCATGGAGTTGTGGACTTA
1 AAAGGA-TGCCACAG-AGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTA
* * *
74827 AAAGGATGCCA-AGGAGTTATGGACTTTAAAAGGGTGCCACGGAGGTGTGGACTTTA
1 AAAGGATGCCACA-GAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TTA
* * ** *
74883 AAAGGGTGCCACAGAGTTGTGGACTTT-AAAGGGTGCCACAAAATTGTGGACTTA
1 AAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTA
* * * * *
74937 AAAGGGTGCCACGGAGTTGTGGACTCTAAAAGGGTGCCACAGAGTTGTGGACTTTA
1 AAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TTA
*
74993 AAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTA
1 AAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTA
75048 AAAGGATGCCACAGAGTTGTGGACTTTAAAAGGA
1 AAAGGATGCCACAGAGTTGTGGACTTTAAAAGGA
75082 AATGCCATTG
Statistics
Matches: 655, Mismatches: 75, Indels: 43
0.85 0.10 0.06
Matches are distributed among these distances:
53 12 0.02
54 175 0.27
55 225 0.34
56 176 0.27
57 49 0.07
58 18 0.03
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.26
Consensus pattern (55 bp):
AAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTA
Found at i:76137 original size:11 final size:11
Alignment explanation
Indices: 76121--76151 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
76111 AGGGTGAAAA
76121 GGTTTTTTTTT
1 GGTTTTTTTTT
76132 GGTTTTTTTTT
1 GGTTTTTTTTT
76143 -GTTTTTTTT
1 GGTTTTTTTT
76152 CTTTTTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (11 bp):
GGTTTTTTTTT
Found at i:76466 original size:23 final size:24
Alignment explanation
Indices: 76440--76485 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
76430 TACTTTTGCA
*
76440 CTTTTTCTTTTCA-TTTTTTTGTG
1 CTTTTGCTTTTCACTTTTTTTGTG
*
76463 CTTTTGCTTTTGACTTTTTTTGT
1 CTTTTGCTTTTCACTTTTTTTGT
76486 CATTTTAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.04, C:0.13, G:0.11, T:0.72
Consensus pattern (24 bp):
CTTTTGCTTTTCACTTTTTTTGTG
Found at i:83677 original size:22 final size:23
Alignment explanation
Indices: 83643--83686 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
83633 TTTAAAACTA
83643 ATAAACATATTT-ATTTGTTTAT
1 ATAAACATATTTAATTTGTTTAT
* *
83665 ATAAATATGTTTAGATTTGTTT
1 ATAAACATATTTA-ATTTGTTT
83687 GTTTATTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
24 8 0.44
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (23 bp):
ATAAACATATTTAATTTGTTTAT
Found at i:83750 original size:23 final size:23
Alignment explanation
Indices: 83724--83778 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
83714 TTATTCACAA
*
83724 AATATATTCGATTATAT-TTTATG
1 AATATATTCGATTA-ATGTTTACG
* *
83747 AATATGTTCGTTTAATGTTTACG
1 AATATATTCGATTAATGTTTACG
*
83770 AATAAATTC
1 AATATATTC
83779 ATTTAATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 2 0.08
23 24 0.92
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.47
Consensus pattern (23 bp):
AATATATTCGATTAATGTTTACG
Found at i:85767 original size:24 final size:25
Alignment explanation
Indices: 85740--85798 Score: 86
Period size: 24 Copynumber: 2.4 Consensus size: 25
85730 TGAGAGGGAG
*
85740 GACAAGATTTGA-AAAATCTTGAAT
1 GACAAGATTTGACAAAATCTTAAAT
*
85764 GACAAGATTT-ACCAAATCTTAAAT
1 GACAAGATTTGACAAAATCTTAAAT
85788 GACAAGATTTG
1 GACAAGATTTG
85799 GCAGAAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 1 0.03
24 30 0.97
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (25 bp):
GACAAGATTTGACAAAATCTTAAAT
Found at i:88199 original size:17 final size:17
Alignment explanation
Indices: 88177--88210 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
88167 TAATTTTTGA
88177 ATTTTTATTAAATTAAT
1 ATTTTTATTAAATTAAT
*
88194 ATTTTTATTAATTTAAT
1 ATTTTTATTAAATTAAT
88211 TTATAACGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTTATTAAATTAAT
Found at i:90221 original size:20 final size:20
Alignment explanation
Indices: 90196--90245 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
90186 TTTTACCCAG
90196 ATGTATCGATACATTATTCA
1 ATGTATCGATACATTATTCA
90216 ATGTATCGATACATTATTCA
1 ATGTATCGATACATTATTCA
90236 ATGTATCGAT
1 ATGTATCGAT
90246 TCATGCACGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTATTCA
Found at i:101627 original size:14 final size:14
Alignment explanation
Indices: 101610--101652 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
101600 ACGTAATTTG
101610 ATAAATTATTTTAA
1 ATAAATTATTTTAA
*
101624 ATAAATTATATTTTA
1 ATAAATTAT-TTTAA
*
101639 ATAATTTATTTTAA
1 ATAAATTATTTTAA
101653 TTTTAACAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATAAATTATTTTAA
Found at i:101647 original size:15 final size:16
Alignment explanation
Indices: 101616--101652 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 16
101606 TTTGATAAAT
101616 TATTTTAAATAAATTA
1 TATTTTAAATAAATTA
101632 TATTTT-AAT-AATT-
1 TATTTTAAATAAATTA
101645 TATTTTAA
1 TATTTTAA
101653 TTTTAACAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.30
14 5 0.25
15 3 0.15
16 6 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTTTAAATAAATTA
Found at i:104906 original size:21 final size:21
Alignment explanation
Indices: 104888--104925 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 21
104878 ACAATAATTG
104888 TAATTAAT-T-ATTGTTTAAT
1 TAATTAATATAATTGTTTAAT
104907 TAATTAATATAATTGTTTA
1 TAATTAATATAATTGTTTA
104926 TTACTGTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 1 0.06
21 8 0.47
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (21 bp):
TAATTAATATAATTGTTTAAT
Found at i:104997 original size:28 final size:28
Alignment explanation
Indices: 104913--104997 Score: 77
Period size: 26 Copynumber: 3.1 Consensus size: 28
104903 TAATTAATTA
* *
104913 ATATAATTG-TTTATTACTGTACATA-T
1 ATATAATTGTTTTATTAATGTATATATT
** *
104939 ATATAATT-TTTTATTGGTGTATTTATAT
1 ATATAATTGTTTTATTAATGTATATAT-T
* *
104967 ATATAATTGTTTTGTTAATGTATGTATT
1 ATATAATTGTTTTATTAATGTATATATT
104995 ATA
1 ATA
104998 ATTGTGTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
26 20 0.43
28 13 0.28
29 14 0.30
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (28 bp):
ATATAATTGTTTTATTAATGTATATATT
Found at i:110725 original size:29 final size:29
Alignment explanation
Indices: 110690--110745 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
110680 GATAAAATGG
* *
110690 CAATATTTTGGTAATTTGTTTCAAAATAA
1 CAATATTTTGATAATTTATTTCAAAATAA
*
110719 CAATATTTTGATAATTTATTTTAAAAT
1 CAATATTTTGATAATTTATTTCAAAAT
110746 TAAGAGTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.48
Consensus pattern (29 bp):
CAATATTTTGATAATTTATTTCAAAATAA
Found at i:110949 original size:28 final size:29
Alignment explanation
Indices: 110882--110951 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 29
110872 TTTTAGTAAT
110882 TTAATTAATAAA-ATTTATCATATAATAAA
1 TTAATTAA-AAATATTTATCATATAATAAA
* *
110911 TTAATAAAAAATATTTATTAT-TACAT-AA
1 TTAATTAAAAATATTTATCATATA-ATAAA
110939 TTAATTAAAAATA
1 TTAATTAAAAATA
110952 AGTAATTACA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 19 0.53
29 17 0.47
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (29 bp):
TTAATTAAAAATATTTATCATATAATAAA
Found at i:115185 original size:16 final size:15
Alignment explanation
Indices: 115164--115208 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
115154 AAAACTTTAA
115164 AAAAATTTTAAATATT
1 AAAAATTTTAAAT-TT
*
115180 AAAAATATTAAATTT
1 AAAAATTTTAAATTT
* *
115195 AAAATTTTTTAATT
1 AAAAATTTTAAATT
115209 AAGTTTAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAAATTTTAAATTT
Found at i:115471 original size:37 final size:35
Alignment explanation
Indices: 115392--115505 Score: 102
Period size: 37 Copynumber: 3.0 Consensus size: 35
115382 AATTGAATAG
**
115392 ATTAATTTAAAATTATATTTAAATAAAAAATAATTTT
1 ATTAATTTAAAA-T-TATTTAAATAAAAAATAATTAA
* *
115429 TTTAATTTAAAATTATTTAAATATAAAATTAACTTAA
1 ATTAATTTAAAATTATTTAAATA-AAAAATAA-TTAA
*
115466 ATTAATTAAATTATGATCTATTTAAATAAAAAATAATTAA
1 ATTAATTTAA--A--AT-TATTTAAATAAAAAATAATTAA
115506 TAACACACAT
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
35 10 0.16
36 8 0.13
37 21 0.33
39 1 0.02
40 4 0.06
41 9 0.14
42 10 0.16
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.44
Consensus pattern (35 bp):
ATTAATTTAAAATTATTTAAATAAAAAATAATTAA
Found at i:117184 original size:3 final size:3
Alignment explanation
Indices: 117170--117217 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
117160 TGGCTCACCC
*
117170 TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
117218 GCTTTTGCGC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:117543 original size:3 final size:3
Alignment explanation
Indices: 117535--117569 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
117525 AACTTATGAT
*
117535 TTA TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
117570 GGCGCTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:123043 original size:31 final size:31
Alignment explanation
Indices: 122997--123069 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
122987 ATTCTGGTGA
* *
122997 CTAGTAAATTTAATTTGGATTTGGCTAGCAG
1 CTAGCAAATTCAATTTGGATTTGGCTAGCAG
* *
123028 CTAGCAAATTCAATTTGGATTTGGCTGGCGG
1 CTAGCAAATTCAATTTGGATTTGGCTAGCAG
123059 CTAGCAAATTC
1 CTAGCAAATTC
123070 CAAATCAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.34
Consensus pattern (31 bp):
CTAGCAAATTCAATTTGGATTTGGCTAGCAG
Found at i:123866 original size:10 final size:10
Alignment explanation
Indices: 123851--123875 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
123841 TTATTTAAAT
123851 TATATTTTTA
1 TATATTTTTA
123861 TATATTTTTA
1 TATATTTTTA
123871 TATAT
1 TATAT
123876 CATATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TATATTTTTA
Found at i:124624 original size:13 final size:14
Alignment explanation
Indices: 124608--124646 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
124598 ATTTTGATTA
*
124608 AAAATTCAAAAGT-
1 AAAATTAAAAAGTC
124621 AAAATTAAAAAGTC
1 AAAATTAAAAAGTC
124635 AAAATTATAAAA
1 AAAATTA-AAAA
124647 AAACAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.52
14 7 0.30
15 4 0.17
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (14 bp):
AAAATTAAAAAGTC
Found at i:124960 original size:163 final size:164
Alignment explanation
Indices: 124663--124989 Score: 480
Period size: 163 Copynumber: 2.0 Consensus size: 164
124653 GAAAAAAAGG
* * * * *
124663 GATTTTAAAATTAGAGCAATCAGGATTGAAATTAACCAAATTAAAGTATAAAGGTGAGAAAGAGA
1 GATTTTAAAATTACAGCAATCAGGATAGAAATTAACCAAATTAAAATATAAAAGTAAGAAAGAGA
*
124728 GACCACTTTTAAGATAATAGTGGTGAGAATTAGGTCAATTGAAGAAACAACAATCAACTAATTAG
66 GACCACTTTTAAGATAATAGCGGTGAGAATTAGGTCAATTGAAGAAACAACAATCAACTAATTAG
124793 ATTCAAGGATCAAACTAACTTTATTTTTCCAATA
131 ATTCAAGGATCAAACTAACTTTATTTTTCCAATA
** * *
124827 GATTTTAAAATTACAGCAATCAGGATCAG-AATTTGCCAAATTAAAATATAAAATTAAGACAGAG
1 GATTTTAAAATTACAGCAATCAGGAT-AGAAATTAACCAAATTAAAATATAAAAGTAAGAAAGAG
* * * *
124891 AGACCAC-TTTAAGATAATAGCGGTGAGAATTAGGTTAGTTGAAGAAACAGCACTCAA-TGAATT
65 AGACCACTTTTAAGATAATAGCGGTGAGAATTAGGTCAATTGAAGAAACAACAATCAACT-AATT
*
124954 AGATTCAATGATCAAACTAACTTTATTTTTCCAATA
129 AGATTCAAGGATCAAACTAACTTTATTTTTCCAATA
124990 CTCCAAGAGG
Statistics
Matches: 146, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
162 1 0.01
163 84 0.58
164 60 0.41
165 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (164 bp):
GATTTTAAAATTACAGCAATCAGGATAGAAATTAACCAAATTAAAATATAAAAGTAAGAAAGAGA
GACCACTTTTAAGATAATAGCGGTGAGAATTAGGTCAATTGAAGAAACAACAATCAACTAATTAG
ATTCAAGGATCAAACTAACTTTATTTTTCCAATA
Found at i:125606 original size:2 final size:2
Alignment explanation
Indices: 125599--125645 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
125589 TAAGTATGAT
125599 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
125641 TA TA T
1 TA TA T
125646 TGCATACCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:130754 original size:20 final size:20
Alignment explanation
Indices: 130726--130800 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
130716 TTTTACCCAG
130726 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
130746 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
130766 ATGTATCGATATATTCTGCA
1 ATGTATCGATACATTTTTCA
130786 ATGTATCGATACATT
1 ATGTATCGATACATT
130801 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:130793 original size:40 final size:39
Alignment explanation
Indices: 130726--130803 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
130716 TTTTACCCAG
* *
130726 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTGCAATATATCGATACAT-TATGA
* *
130766 ATGTATCGATATATTCTGCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTGCAATATATCGATACATTATG
130804 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTGCAATATATCGATACATTATGA
Found at i:135409 original size:28 final size:29
Alignment explanation
Indices: 135327--135421 Score: 81
Period size: 28 Copynumber: 3.3 Consensus size: 29
135317 TGTAAAACTA
* *
135327 AAAAAGTTCCTA-CTTAAGCATTGAAAAGT
1 AAAAAGTTGCTATCTTAAGC-TTGAAAAAT
* * *
135356 AAAAAG--GTTATCTTAACCTAGAAAAAAT
1 AAAAAGTTGCTATCTTAAGCTTG-AAAAAT
135384 AAAAAGTTGCTATCTT-AGCTTGAAAATAT
1 AAAAAGTTGCTATCTTAAGCTTGAAAA-AT
*
135413 AAAGAGTTG
1 AAAAAGTTG
135422 TGAAGTTTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
27 4 0.08
28 21 0.40
29 20 0.38
30 7 0.13
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (29 bp):
AAAAAGTTGCTATCTTAAGCTTGAAAAAT
Found at i:139588 original size:2 final size:2
Alignment explanation
Indices: 139581--139618 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
139571 CTTTAAATGA
139581 AT AT AT AT 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 AT AT AT AT
139619 GCATGGAAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:143063 original size:13 final size:13
Alignment explanation
Indices: 143047--143073 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
143037 ATAAATAAAC
143047 TAAAATATTTATA
1 TAAAATATTTATA
143060 TAAAATATTTATA
1 TAAAATATTTATA
143073 T
1 T
143074 TGATGCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAAAATATTTATA
Found at i:143608 original size:40 final size:40
Alignment explanation
Indices: 143558--143637 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
143548 AAATTTTTTT
* *
143558 CGTAACTTGAGTTTTAAAATTTGTATTATTATTTAAATAA
1 CGTAACTTGAGCTATAAAATTTGTATTATTATTTAAATAA
* *
143598 CGTAATTTGAGCTATAAAATTTTTATTATTATTTAAATAA
1 CGTAACTTGAGCTATAAAATTTGTATTATTATTTAAATAA
143638 AATTTAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (40 bp):
CGTAACTTGAGCTATAAAATTTGTATTATTATTTAAATAA
Found at i:144315 original size:21 final size:22
Alignment explanation
Indices: 144289--144359 Score: 66
Period size: 21 Copynumber: 3.5 Consensus size: 22
144279 GATGTAATTT
144289 AAAATAT-TTAATATTATATTA
1 AAAATATATTAATATTATATTA
144310 AAAATATCATT-AT-TTA-ATATA
1 AAAATAT-ATTAATATTATAT-TA
*
144331 AAAATATATTAA-AATAT-TTA
1 AAAATATATTAATATTATATTA
144351 AAAAT-TATT
1 AAAATATATT
144360 TAAATAAATA
Statistics
Matches: 43, Mismatches: 1, Indels: 14
0.74 0.02 0.24
Matches are distributed among these distances:
19 4 0.09
20 12 0.28
21 23 0.53
22 2 0.05
23 2 0.05
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAATATATTAATATTATATTA
Found at i:144323 original size:20 final size:19
Alignment explanation
Indices: 144300--144359 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
144290 AAATATTTAA
144300 TATTATATTAAAAATATCAT
1 TATTATATTAAAAATAT-AT
144320 TATT-TAATATAAAAATATAT
1 TATTAT-AT-TAAAAATATAT
**
144340 TAAAATATTTAAAAAT-TAT
1 TATTATA-TTAAAAATATAT
144359 T
1 T
144360 TAAATAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 5 0.15
20 18 0.53
21 11 0.32
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
TATTATATTAAAAATATAT
Found at i:144348 original size:52 final size:55
Alignment explanation
Indices: 144287--144388 Score: 140
Period size: 55 Copynumber: 1.9 Consensus size: 55
144277 AAGATGTAAT
*
144287 TTAAAATATTT-AATATTATATT-AA-AAAT-ATCATTATTTAATATAAAAATATA
1 TTAAAATATTTAAAAATTAT-TTAAATAAATAATCATTATTTAATATAAAAATATA
**
144339 TTAAAATATTTAAAAATTATTTAAATAAATAATTGTTATTTAATATAAAA
1 TTAAAATATTTAAAAATTATTTAAATAAATAATCATTATTTAATATAAAA
144389 TTAAAATTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
52 13 0.30
53 9 0.21
54 4 0.09
55 17 0.40
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (55 bp):
TTAAAATATTTAAAAATTATTTAAATAAATAATCATTATTTAATATAAAAATATA
Found at i:144774 original size:3 final size:3
Alignment explanation
Indices: 144760--144821 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
144750 GGACAAAAGC
*
144760 TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
144808 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
144822 TAAGAGGTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:145024 original size:23 final size:25
Alignment explanation
Indices: 144998--145055 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 25
144988 TAAATATATA
144998 TTTAATATAAA-TATATTTAT-TTT
1 TTTAATATAAATTATATTTATATTT
* *
145021 TTTAAAAAAAATTATATTTATATTT
1 TTTAATATAAATTATATTTATATTT
145046 TATTATATAT
1 T-TTA-ATAT
145056 TTGATAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
23 9 0.33
24 9 0.33
25 4 0.15
26 3 0.11
27 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TTTAATATAAATTATATTTATATTT
Found at i:145588 original size:15 final size:14
Alignment explanation
Indices: 145568--145632 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 14
145558 ATTGATATAA
145568 AAATTATTTAAATTT
1 AAATTATTTAAA-TT
*
145583 AAATTATTTTGAATT
1 AAATTA-TTTAAATT
*
145598 AAATT-TATTAATTTT
1 AAATTAT-TTAA-ATT
*
145613 AAAATTTTTTAAATT
1 -AAATTATTTAAATT
145628 AAATT
1 AAATT
145633 TAAATATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
13 1 0.02
14 8 0.20
15 17 0.41
16 14 0.34
17 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (14 bp):
AAATTATTTAAATT
Found at i:145614 original size:30 final size:30
Alignment explanation
Indices: 145575--145634 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
145565 TAAAAATTAT
*
145575 TTAAATTT-AAATTATTTTGAATTAAATTTA
1 TTAAATTTAAAATT-TTTTAAATTAAATTTA
*
145605 TTAATTTTAAAATTTTTTAAATTAAATTTA
1 TTAAATTTAAAATTTTTTAAATTAAATTTA
145635 AATATTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (30 bp):
TTAAATTTAAAATTTTTTAAATTAAATTTA
Found at i:151459 original size:13 final size:14
Alignment explanation
Indices: 151431--151460 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
151421 TATATAGCTA
151431 TTGTGGGAATTTTT
1 TTGTGGGAATTTTT
151445 TTGTGGGAATTTTT
1 TTGTGGGAATTTTT
151459 TT
1 TT
151461 CATTAGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.27, T:0.60
Consensus pattern (14 bp):
TTGTGGGAATTTTT
Found at i:151970 original size:13 final size:14
Alignment explanation
Indices: 151937--151974 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
151927 CTTTTTTTTG
*
151937 TTTGTAATTTTGACT
1 TTTG-AATTTTGACC
151952 TTTGAATTTT-ACC
1 TTTGAATTTTGACC
151965 TTTGAATTTT
1 TTTGAATTTT
151975 TAATCAGGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
14 6 0.27
15 4 0.18
ACGTcount: A:0.21, C:0.08, G:0.11, T:0.61
Consensus pattern (14 bp):
TTTGAATTTTGACC
Found at i:154111 original size:3 final size:3
Alignment explanation
Indices: 154103--154141 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
154093 GGGCAAAAGC
154103 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
154142 GGGGTGAGCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:154937 original size:38 final size:38
Alignment explanation
Indices: 154894--155076 Score: 278
Period size: 38 Copynumber: 4.8 Consensus size: 38
154884 TTGAATTAGT
*
154894 TGACGGTTAGAGAATTCAATTTGAAATTGGCTGGCGGC
1 TGACGGCTAGAGAATTCAATTTGAAATTGGCTGGCGGC
*
154932 TGACGGTTAGAGAATTCAATTTGAAATTGGCTGGCGGC
1 TGACGGCTAGAGAATTCAATTTGAAATTGGCTGGCGGC
*
154970 TGACGGCTAGAGAATTCAATTTGAAATTGGCTGACGGC
1 TGACGGCTAGAGAATTCAATTTGAAATTGGCTGGCGGC
* * * *
155008 TGACGACTAGAGAATTCAATTTGAAATTAGCCGGCAGC
1 TGACGGCTAGAGAATTCAATTTGAAATTGGCTGGCGGC
*
155046 TGACGACTAGAGAATTCAATTT-AGAATTGGC
1 TGACGGCTAGAGAATTCAATTTGA-AATTGGC
155077 CGGTGGCCGG
Statistics
Matches: 136, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
37 1 0.01
38 135 0.99
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (38 bp):
TGACGGCTAGAGAATTCAATTTGAAATTGGCTGGCGGC
Found at i:159317 original size:12 final size:12
Alignment explanation
Indices: 159300--159325 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
159290 GTTGCTATGG
159300 TTGAAGAAGTTC
1 TTGAAGAAGTTC
159312 TTGAAGAAGTTC
1 TTGAAGAAGTTC
159324 TT
1 TT
159326 TTCATTCCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (12 bp):
TTGAAGAAGTTC
Found at i:159631 original size:38 final size:38
Alignment explanation
Indices: 159581--159723 Score: 232
Period size: 38 Copynumber: 3.8 Consensus size: 38
159571 TGAATTAGTT
*
159581 ACGGTTAGAGAATTCAATTTGAAATTGGCTAGCGGCTG
1 ACGGCTAGAGAATTCAATTTGAAATTGGCTAGCGGCTG
* * *
159619 ACGGCTGGAGAATTCAATTTGAAATTGGCTGGCGGCTA
1 ACGGCTAGAGAATTCAATTTGAAATTGGCTAGCGGCTG
*
159657 ACGGCTAGAGAATTCAATTTGAAATTGGCCAGCGGCTG
1 ACGGCTAGAGAATTCAATTTGAAATTGGCTAGCGGCTG
*
159695 ACGACTAGAGAATTCAATTTGAAATTGGC
1 ACGGCTAGAGAATTCAATTTGAAATTGGC
159724 CGGTGGCTGG
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 96 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (38 bp):
ACGGCTAGAGAATTCAATTTGAAATTGGCTAGCGGCTG
Found at i:159694 original size:45 final size:43
Alignment explanation
Indices: 159645--159763 Score: 104
Period size: 38 Copynumber: 2.8 Consensus size: 43
159635 ATTTGAAATT
159645 GGCTGGCGGCTAACGGCTAGAGAATTCAATTTGAAATTGGCCAGC
1 GGCTGG-GGCT-ACGGCTAGAGAATTCAATTTGAAATTGGCCAGC
* * *
159690 GGCT---G--ACGACTAGAGAATTCAATTTGAAATTGGCCGGT
1 GGCTGGGGCTACGGCTAGAGAATTCAATTTGAAATTGGCCAGC
** *
159728 GGCTGGTGGCTGGTGGCTAGAGAATTCCAAATTGAA
1 GGCTGG-GGCT-ACGGCTAGAGAATT-CAATTTGAA
159764 CTCTCTTTGA
Statistics
Matches: 59, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
38 34 0.58
41 1 0.02
42 1 0.02
45 15 0.25
46 8 0.14
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (43 bp):
GGCTGGGGCTACGGCTAGAGAATTCAATTTGAAATTGGCCAGC
Found at i:162401 original size:30 final size:27
Alignment explanation
Indices: 162354--162410 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 27
162344 AAACTATTAT
162354 ATAATTTAAACATAAAAATAAATAAAA
1 ATAATTTAAACATAAAAATAAATAAAA
*
162381 ATAATTTAAAAACAATAAAAATTAATAAAA
1 ATAATTT--AAAC-ATAAAAATAAATAAAA
162411 TCGAAATACA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 7 0.27
29 4 0.15
30 15 0.58
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (27 bp):
ATAATTTAAACATAAAAATAAATAAAA
Found at i:162840 original size:22 final size:22
Alignment explanation
Indices: 162815--162870 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
162805 TGACACTAGG
162815 GTATTGATACTTTATGGCAAAA
1 GTATTGATACTTTATGGCAAAA
* **
162837 GTATCT-ATAGTTTATGGCATTA
1 GTAT-TGATACTTTATGGCAAAA
162859 GTATTGATACTT
1 GTATTGATACTT
162871 CAATTAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 1 0.04
22 26 0.93
23 1 0.04
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (22 bp):
GTATTGATACTTTATGGCAAAA
Found at i:163059 original size:22 final size:22
Alignment explanation
Indices: 163010--163079 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
163000 GTATTGATAT
*
163010 TTTATAGCAAAAGTATCAATAC
1 TTTATGGCAAAAGTATCAATAC
* *
163032 TTTATGGCAAAAGTATCTATAG
1 TTTATGGCAAAAGTATCAATAC
* * **
163054 TTTATGACATAAGTATTGATAC
1 TTTATGGCAAAAGTATCAATAC
163076 TTTA
1 TTTA
163080 GTTAAAAACC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (22 bp):
TTTATGGCAAAAGTATCAATAC
Found at i:163203 original size:28 final size:28
Alignment explanation
Indices: 163169--163238 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
163159 CATTTTATAC
163169 CATATAGAATTTTCAATTAAACATTTT-A
1 CATATAGAATTTTCAATTAAAC-TTTTGA
* *
163197 CATATAGAGTTTTTAATTAAACTTTTGA
1 CATATAGAATTTTCAATTAAACTTTTGA
* *
163225 CATGTAAAATTTTC
1 CATATAGAATTTTC
163239 GACTAAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 4 0.11
28 31 0.89
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (28 bp):
CATATAGAATTTTCAATTAAACTTTTGA
Found at i:163427 original size:14 final size:14
Alignment explanation
Indices: 163383--163442 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
163373 TGTGTATATA
163383 ATTTTTAATTAAAC
1 ATTTTTAATTAAAC
163397 -TTTTATACA-TAAA-
1 ATTTT-TA-ATTAAAC
163410 ATTTTTAATTAAAC
1 ATTTTTAATTAAAC
*
163424 ATTTTTAACTAAAC
1 ATTTTTAATTAAAC
163438 -TTTTT
1 ATTTTT
163443 CATATAGATT
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
12 1 0.03
13 15 0.38
14 23 0.57
15 1 0.03
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTTTTAATTAAAC
Found at i:163429 original size:41 final size:41
Alignment explanation
Indices: 163383--163462 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
163373 TGTGTATATA
*
163383 ATTTTTAATTAAACTTTTATACATA-A-AATTTTTAATTAAAC
1 ATTTTTAACTAAACTTTT-T-CATATAGAATTTTTAATTAAAC
*
163424 ATTTTTAACTAAACTTTTTCATATAGATTTTTTAATTAA
1 ATTTTTAACTAAACTTTTTCATATAGAATTTTTAATTAA
163463 CTCTCACAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 4 0.11
40 2 0.06
41 29 0.83
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.51
Consensus pattern (41 bp):
ATTTTTAACTAAACTTTTTCATATAGAATTTTTAATTAAAC
Found at i:163556 original size:26 final size:25
Alignment explanation
Indices: 163526--163596 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 25
163516 ATTTTTTTTT
*
163526 TTTTTACATTTGGAATTTTCAATTAAA
1 TTTTTACATAT-GAATTTT-AATTAAA
163553 TTTTTTACATATGAATTTTAATTAAA
1 -TTTTTACATATGAATTTTAATTAAA
* ** *
163579 CTTAAACATATCAATTTT
1 TTTTTACATATGAATTTT
163597 TTGCATAGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
25 14 0.37
26 7 0.18
27 7 0.18
28 10 0.26
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (25 bp):
TTTTTACATATGAATTTTAATTAAA
Found at i:163568 original size:27 final size:27
Alignment explanation
Indices: 163525--163578 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
163515 AATTTTTTTT
*
163525 TTTTTTACATTTGGAATTTTCAATTAAA
1 TTTTTTACATATGGAATTTT-AATTAAA
163553 TTTTTTACATAT-GAATTTTAATTAAA
1 TTTTTTACATATGGAATTTTAATTAAA
163579 CTTAAACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 7 0.28
27 7 0.28
28 11 0.44
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.54
Consensus pattern (27 bp):
TTTTTTACATATGGAATTTTAATTAAA
Found at i:166076 original size:78 final size:77
Alignment explanation
Indices: 165979--166150 Score: 181
Period size: 78 Copynumber: 2.2 Consensus size: 77
165969 TGAAACTAGA
* *
165979 CTTAAAAGACTCGGATTCTATCAAAT-AAA-ACTAAAATGTCCCATAAAGTATA-CTTTCGATAT
1 CTTAAAGGACTC-GATTCTA--AAATGAAATACTAAAATG-CCCATAAAGTATATC-TTCGACAT
166041 GAAAGTATCCCGATAA-
61 GAAAGTATCCCGATAAC
* * * * *
166057 CTCTAATGGACTCGATTCTAAGATGAAATTATTAAAATGCCCCTAAAGTATATCTTCGACGTGAA
1 CT-TAAAGGACTCGATTCTAAAATGAAA-TACTAAAATGCCCATAAAGTATATCTTCGACATGAA
*
166122 AGTATCCTGATAAC
64 AGTATCCCGATAAC
166136 CTTAAAGGACTCGAT
1 CTTAAAGGACTCGAT
166151 AATATAATAA
Statistics
Matches: 79, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
76 3 0.04
77 3 0.04
78 54 0.68
79 19 0.24
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (77 bp):
CTTAAAGGACTCGATTCTAAAATGAAATACTAAAATGCCCATAAAGTATATCTTCGACATGAAAG
TATCCCGATAAC
Found at i:171759 original size:19 final size:18
Alignment explanation
Indices: 171734--171801 Score: 65
Period size: 19 Copynumber: 3.9 Consensus size: 18
171724 GTAGTAGCTA
171734 ATTATGTATCGATACAAC
1 ATTATGTATCGATACAAC
*
171752 ATTTATGTATC-A-A-TAC
1 A-TTATGTATCGATACAAC
*
171768 A-T-TGTATCGATACAAT
1 ATTATGTATCGATACAAC
171784 ACTTATGTATCGATACAA
1 A-TTATGTATCGATACAA
171802 ATCGTTGAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 13
0.71 0.05 0.23
Matches are distributed among these distances:
13 6 0.15
14 2 0.05
15 1 0.03
16 5 0.12
17 1 0.03
18 3 0.08
19 22 0.55
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (18 bp):
ATTATGTATCGATACAAC
Found at i:171777 original size:32 final size:32
Alignment explanation
Indices: 171738--171800 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
171728 TAGCTAATTA
*
171738 TGTATCGATACAACATTTATGTATCAATACAT
1 TGTATCGATACAACACTTATGTATCAATACAT
* *
171770 TGTATCGATACAATACTTATGTATCGATACA
1 TGTATCGATACAACACTTATGTATCAATACA
171801 AATCGTTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCAATACAT
Found at i:171989 original size:13 final size:13
Alignment explanation
Indices: 171971--171998 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
171961 ATGTCGAATC
171971 CTTCACCTATTAG
1 CTTCACCTATTAG
171984 CTTCACCTATTAG
1 CTTCACCTATTAG
171997 CT
1 CT
171999 AGGCCTTAAA
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:0.21, C:0.32, G:0.07, T:0.39
Consensus pattern (13 bp):
CTTCACCTATTAG
Found at i:177853 original size:63 final size:63
Alignment explanation
Indices: 177751--177969 Score: 260
Period size: 63 Copynumber: 3.5 Consensus size: 63
177741 CAATAGTTGG
** * * * *
177751 AAAGATTGACTAGGGTGAAACCATAATGGTCAAGGAAATGACGAGGGCAAAACCTTCAGTCAG
1 AAAGATTGACTAGGGCAAAACCATAATAGTCAAGAAAATGACCAGGGCAAAACCTTCAGTCAA
* * ** ** *
177814 AAAGATTGATTAAGGCAAAACCATAATAGTCAAGAAAATGACCAAAGTGAAACCTTTAGTCAA
1 AAAGATTGACTAGGGCAAAACCATAATAGTCAAGAAAATGACCAGGGCAAAACCTTCAGTCAA
* *
177877 AAAGATTGACTAGGGCAAAACCATAATAGTCAA-AGAAATGACTAGGGCAAAACCTTCAATCAA
1 AAAGATTGACTAGGGCAAAACCATAATAGTCAAGA-AAATGACCAGGGCAAAACCTTCAGTCAA
* **
177940 AAAGATTGACCAGGGTGAAACCATAATAGT
1 AAAGATTGACTAGGGCAAAACCATAATAGT
177970 TTAAGTGACA
Statistics
Matches: 130, Mismatches: 25, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
62 1 0.01
63 129 0.99
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.19
Consensus pattern (63 bp):
AAAGATTGACTAGGGCAAAACCATAATAGTCAAGAAAATGACCAGGGCAAAACCTTCAGTCAA
Found at i:177924 original size:32 final size:32
Alignment explanation
Indices: 177757--177930 Score: 112
Period size: 32 Copynumber: 5.5 Consensus size: 32
177747 TTGGAAAGAT
** * *
177757 TGACTAGGGTGAAACCATAATGGTCAAGGAAA
1 TGACTAGGGCAAAACCATAATAGTCAAAGAAA
* *
177789 TGACGAGGGCAAAACC-T--TCAGTCAGAA-AGAT
1 TGACTAGGGCAAAACCATAAT-AGTCA-AAGA-AA
* *
177820 TGATTAAGGCAAAACCATAATAGTC-AAGAAAA
1 TGACTAGGGCAAAACCATAATAGTCAAAG-AAA
* ** ** *
177852 TGACCAAAGTGAAACC-T-TTAGTCAAA-AAGA
1 TGACTAGGGCAAAACCATAATAGTCAAAGAA-A
177882 TTGACTAGGGCAAAACCATAATAGTCAAAGAAA
1 -TGACTAGGGCAAAACCATAATAGTCAAAGAAA
177915 TGACTAGGGCAAAACC
1 TGACTAGGGCAAAACC
177931 TTCAATCAAA
Statistics
Matches: 106, Mismatches: 22, Indels: 28
0.68 0.14 0.18
Matches are distributed among these distances:
29 3 0.03
30 11 0.10
31 32 0.30
32 43 0.41
33 14 0.13
34 3 0.03
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.18
Consensus pattern (32 bp):
TGACTAGGGCAAAACCATAATAGTCAAAGAAA
Found at i:177944 original size:32 final size:31
Alignment explanation
Indices: 177863--177944 Score: 78
Period size: 32 Copynumber: 2.6 Consensus size: 31
177853 GACCAAAGTG
* *
177863 AAACCTTTAGTCAAAAAG-ATTGACTAGGGCA
1 AAACC-TTAATCAAAAAGAAATGACTAGGGCA
* *
177894 AAACCATAAT-AGTCAAAGAAATGACTAGGGCA
1 AAACCTTAATCA--AAAAGAAATGACTAGGGCA
177926 AAACCTTCAATCAAAAAGA
1 AAACCTT-AATCAAAAAGA
177945 TTGACCAGGG
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
29 1 0.03
30 3 0.08
31 9 0.22
32 23 0.57
33 3 0.08
34 1 0.03
ACGTcount: A:0.49, C:0.17, G:0.16, T:0.18
Consensus pattern (31 bp):
AAACCTTAATCAAAAAGAAATGACTAGGGCA
Found at i:178957 original size:166 final size:166
Alignment explanation
Indices: 178655--179883 Score: 1561
Period size: 165 Copynumber: 7.4 Consensus size: 166
178645 AAAATTCTGT
* *
178655 AAATATTATTATTTAATTAATATTAAATCAGTTTCAAAAAAATTATTTATTTTCATGAGTTTTTT
1 AAATATTATTATTTAATTCATATTAAATCAGTTTCAAAAAATTTATTTATTTTCATGAG-TTTTT
* * * * * * *
178720 TATTTTTT-TCTTGAAATATCCCTATTTTTGAAAAATAGG-GTTTTCTATTTCGTAAATGTTTTC
65 CATTTTTTCT-TTGAAATCTCCCTATTTTCGAAAAA-CGGAGTTTTCTACTCCATAAATGTTTTC
*
178783 GGGAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATC
128 GAGAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATC
* *
178822 AAATATTATAATTTAATTCATATTAAATTAGTTTCAAAAAATTTATTTATTTTCATGAGTTTTTC
1 AAATATTATTATTTAATTCATATTAAATCAGTTTCAAAAAATTTATTTATTTTCATGAGTTTTTC
* *
178887 ATTTTTTCTTTGAAATCTCCCTATTTTCGAAAAACGGA-TTGTTCTACTTCATAAATATTTTCGA
66 ATTTTTTCTTTGAAATCTCCCTATTTTCGAAAAACGGAGTT-TTCTACTCCATAAATGTTTTCGA
178951 GAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATC
130 GAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATC
* * ** * *
178988 AAATACTATTATTTAATTCATATTAAATCAATTTC-AAATTTTTTTTTATTTTTATGAGTTTTTC
1 AAATATTATTATTTAATTCATATTAAATCAGTTTCAAAAAATTTATTTATTTTCATGAGTTTTTC
**
179052 A-TTTTTCTTTGAAATCTCCCTATTTTCGAAAAACCAAGTTTTCTACTCCATAAATGTTTT-G-G
66 ATTTTTTCTTTGAAATCTCCCTATTTTCGAAAAACGGAGTTTTCTACTCCATAAATGTTTTCGAG
* * * *
179114 GGGATTTTTTTTGTTTTTTAATTTTTAAAATTTATC
131 AGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATC
* *
179150 AAATATTATTTATTTAATTTATATTAAATCAATTTCAAAAAATTTATTTATTTTCATGAGTTTTT
1 AAATATTA-TTATTTAATTCATATTAAATCAGTTTCAAAAAATTTATTTATTTTCATGAGTTTTT
* * * * *
179215 TA-TTTTT-TTTGAAATCTCCCTATTTTTGAAAAACTGAGTTTTCTACTCCATAAATATTTTCGG
65 CATTTTTTCTTTGAAATCTCCCTATTTTCGAAAAACGGAGTTTTCTACTCCATAAATGTTTTCGA
* * *
179278 GGGGACTTTTCTTTGTTTTTAATTTTTAAAATTCATC
130 GAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATC
* * * *
179315 AAATATAATTATTTAATTTATAATAAATCAGTTTCAAAAAATTCATTTATTTTCATGAGTTTTTC
1 AAATATTATTATTTAATTCATATTAAATCAGTTTCAAAAAATTTATTTATTTTCATGAGTTTTTC
* *
179380 ATTTTTTCTTTGAAATCTCTCTATTTAT-GAAAATC-GAGTTTTCTACTCCATAAATGTTTTCGA
66 ATTTTTTCTTTGAAATCTCCCTATTT-TCGAAAAACGGAGTTTTCTACTCCATAAATGTTTTCGA
* *
179443 GGGGATTTTTCTTGGTTTTTAATTTTTAAAATTTATC
130 GAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATC
* * *
179480 AAATATTATTATTTAATTCATAGTAAATCAGTTTCAAAAAATATATTTATTTTCATGAATTTTTC
1 AAATATTATTATTTAATTCATATTAAATCAGTTTCAAAAAATTTATTTATTTTCATGAGTTTTTC
** *
179545 AATTTTTTCTTTGAAATCTCCCTATTTTCGAAAAACCAAATTTTCTACTCCATAAATGTTTTCGA
66 -ATTTTTTCTTTGAAATCTCCCTATTTTCGAAAAACGGAGTTTTCTACTCCATAAATGTTTTCGA
* * *
179610 GGAGAATTTTT-TTTGTTTTTAATTTTTAAAATTCATA
130 -GAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATC
* * * * *
179647 AAATATTATTATTTAATTCATACTAAATCATTTTCAAAAAATTCATTTATTTTTATGAGTTTTTT
1 AAATATTATTATTTAATTCATATTAAATCAGTTTCAAAAAATTTATTTATTTTCATGAGTTTTTC
* * * * *
179712 ATTTTTTCTTTGAAATCTCCCTATTTCCCAAAAACTGAGCTTTCTACTCCGTAAATGTTTTC-AG
66 ATTTTTTCTTTGAAATCTCCCTATTTTCGAAAAACGGAGTTTTCTACTCCATAAATGTTTTCGAG
* * * **
179776 AGAGATTTTTCTTTG-TTTAAAATTTTAAAATTTGTC
131 AG-GATTTTTCTTGGTTTTTAATTTTTAAAATTCATC
* * * * ** * * *
179812 TAATATTATCATTAAATTCACATTAAATCAGTTTTGAAAAATTTAAATTA-TTTCATGAATTTTG
1 AAATATTATTATTTAATTCATATTAAATCAGTTTCAAAAAATTT-ATTTATTTTCATGAGTTTTT
*
179876 AATTTTTT
65 CATTTTTT
179884 TGTATATATT
Statistics
Matches: 939, Mismatches: 105, Indels: 38
0.87 0.10 0.04
Matches are distributed among these distances:
162 40 0.04
163 76 0.08
164 140 0.15
165 272 0.29
166 239 0.25
167 164 0.17
168 8 0.01
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.50
Consensus pattern (166 bp):
AAATATTATTATTTAATTCATATTAAATCAGTTTCAAAAAATTTATTTATTTTCATGAGTTTTTC
ATTTTTTCTTTGAAATCTCCCTATTTTCGAAAAACGGAGTTTTCTACTCCATAAATGTTTTCGAG
AGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATC
Found at i:180950 original size:13 final size:13
Alignment explanation
Indices: 180932--180957 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
180922 CAATTTTTTG
180932 TGTATCGATACAT
1 TGTATCGATACAT
180945 TGTATCGATACAT
1 TGTATCGATACAT
180958 ACTTGGTGTA
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:180972 original size:32 final size:33
Alignment explanation
Indices: 180912--180975 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
180902 TACAAGCCAA
** *
180912 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
180945 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
180976 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:181715 original size:12 final size:12
Alignment explanation
Indices: 181698--181723 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
181688 TAATTCACAC
181698 ATATCAAAATTT
1 ATATCAAAATTT
181710 ATATCAAAATTT
1 ATATCAAAATTT
181722 AT
1 AT
181724 TTGCATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATCAAAATTT
Found at i:183529 original size:13 final size:13
Alignment explanation
Indices: 183511--183549 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
183501 ATAATCCTCC
* *
183511 TGTATCGATATAG
1 TGTATCGATACAA
183524 TGTATCGATACAA
1 TGTATCGATACAA
183537 TGTATCGATACAA
1 TGTATCGATACAA
183550 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:185629 original size:15 final size:15
Alignment explanation
Indices: 185609--185639 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
185599 ATTTCGTTTG
*
185609 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
185624 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
185639 G
1 G
185640 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
Done.