Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1905
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: 64931
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Found at i:5556 original size:12 final size:13
Alignment explanation
Indices: 5533--5570 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
5523 TTTTTAATAC
5533 TTCGAA-TTTTTT
1 TTCGAATTTTTTT
*
5545 TTC-ATTTTTTTT
1 TTCGAATTTTTTT
5557 TTCGAATTTTTTT
1 TTCGAATTTTTTT
5570 T
1 T
5571 GATCTGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 1 0.05
12 12 0.55
13 9 0.41
ACGTcount: A:0.13, C:0.08, G:0.05, T:0.74
Consensus pattern (13 bp):
TTCGAATTTTTTT
Found at i:5580 original size:24 final size:24
Alignment explanation
Indices: 5533--5580 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
5523 TTTTTAATAC
* *
5533 TTCGAATTTTTTTTCATTTTTTTT
1 TTCGAATTTTTTTTCATCTGTTTT
*
5557 TTCGAATTTTTTTTGATCTGTTTT
1 TTCGAATTTTTTTTCATCTGTTTT
5581 GTTACTCCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.71
Consensus pattern (24 bp):
TTCGAATTTTTTTTCATCTGTTTT
Found at i:7068 original size:27 final size:27
Alignment explanation
Indices: 7038--7089 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
7028 TTATATTGAT
*
7038 TTGATTACGTAGCACTAAGTGTGCGAG
1 TTGATTACATAGCACTAAGTGTGCGAG
* *
7065 TTGATTATATAGCACTGAGTGTGCG
1 TTGATTACATAGCACTAAGTGTGCG
7090 GACTCAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.33
Consensus pattern (27 bp):
TTGATTACATAGCACTAAGTGTGCGAG
Found at i:15116 original size:27 final size:27
Alignment explanation
Indices: 15085--15262 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
15075 TAAATTGTAC
15085 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
15112 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15138 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
15166 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
15194 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15221 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
15248 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
15263 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:15199 original size:82 final size:81
Alignment explanation
Indices: 15086--15241 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
15076 AAATTGTACA
* *
15086 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
15150 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
15167 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
15232 TGCGAGTTGA
65 TGCGAATTGA
15242 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:15253 original size:82 final size:81
Alignment explanation
Indices: 15082--15262 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
15072 GATTAAATTG
* *
15082 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
15147 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
15163 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
15227 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
15245 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
15263 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:32466 original size:14 final size:14
Alignment explanation
Indices: 32447--32488 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
32437 TAGTTTAATG
32447 ATTTTTATTTTTTT
1 ATTTTTATTTTTTT
*
32461 ATTTTTATTTATTT
1 ATTTTTATTTTTTT
32475 ATTTCTTAGTTTTT
1 ATTT-TTA-TTTTT
32489 AAGTTAGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 17 0.71
15 3 0.12
16 4 0.17
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (14 bp):
ATTTTTATTTTTTT
Found at i:33951 original size:20 final size:20
Alignment explanation
Indices: 33928--33981 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
33918 AGTTTTTCCC
*
33928 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
33948 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
33968 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
33982 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:33963 original size:30 final size:30
Alignment explanation
Indices: 33928--34001 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
33918 AGTTTTTCCC
33928 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
33958 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
33988 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
34002 AGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:33991 original size:20 final size:20
Alignment explanation
Indices: 33928--33992 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
33918 AGTTTTTCCC
* * * *
33928 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
33948 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
33967 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
33988 AGCTC
1 AGCTC
33993 GTTTGAGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:36702 original size:12 final size:12
Alignment explanation
Indices: 36681--36836 Score: 55
Period size: 12 Copynumber: 13.6 Consensus size: 12
36671 AGAAAAGGAG
*
36681 AAAGAGATTGAA
1 AAAGAAATTGAA
36693 AAAGAAATTG--
1 AAAGAAATTGAA
**
36703 AAAGAAA-ACAA
1 AAAGAAATTGAA
* *
36714 AATGAAAATGAA
1 AAAGAAATTGAA
**
36726 AAAGAAAAAGAA
1 AAAGAAATTGAA
** *
36738 ATTGCAAA-AGAA
1 AAAG-AAATTGAA
*
36750 AAAGAAATCGAA
1 AAAGAAATTGAA
** **
36762 AAAGTGAGAGAA
1 AAAGAAATTGAA
*
36774 AAAGAAAATGAAGA
1 AAAGAAATTG-A-A
36788 AAAGAAAATTGAA
1 AAAG-AAATTGAA
36801 AAAGAAATTG--
1 AAAGAAATTGAA
36811 --AG-AA-TGAA
1 AAAGAAATTGAA
36819 AAA-AAATTGAA
1 AAAGAAATTGAA
36830 AAAGAAA
1 AAAGAAA
36837 AAGCGAAAAA
Statistics
Matches: 107, Mismatches: 22, Indels: 30
0.67 0.14 0.19
Matches are distributed among these distances:
6 2 0.02
7 2 0.02
8 2 0.02
10 10 0.09
11 16 0.15
12 55 0.51
13 9 0.08
14 6 0.06
15 5 0.05
ACGTcount: A:0.68, C:0.02, G:0.19, T:0.12
Consensus pattern (12 bp):
AAAGAAATTGAA
Found at i:36733 original size:18 final size:18
Alignment explanation
Indices: 36689--36839 Score: 82
Period size: 18 Copynumber: 8.4 Consensus size: 18
36679 AGAAAGAGAT
*
36689 TGAAAAAGAAATTG-AAA
1 TGAAAAAGAAAATGAAAA
*
36706 -G-AAAACAAAATGAAAA
1 TGAAAAAGAAAATGAAAA
* *
36722 TGAAAAAGAAAAAGAAAT
1 TGAAAAAGAAAATGAAAA
* *
36740 TGCAAAAGAAAAAG-AAA
1 TGAAAAAGAAAATGAAAA
* *
36757 TCGAAAAAGTGAGA-GAAAA
1 T-GAAAAAG-AAAATGAAAA
*
36776 AGAAAATGAAGAAAA-GAAAA
1 TG-AAA--AAGAAAATGAAAA
* *
36796 TTGAAAAAGAAATTGAGAA
1 -TGAAAAAGAAAATGAAAA
*
36815 TGAAAAA-AAATTGAAAA
1 TGAAAAAGAAAATGAAAA
*
36832 AGAAAAAG
1 TGAAAAAG
36840 CGAAAAAAGA
Statistics
Matches: 104, Mismatches: 18, Indels: 23
0.72 0.12 0.16
Matches are distributed among these distances:
15 9 0.09
16 4 0.04
17 19 0.18
18 46 0.44
19 12 0.12
20 10 0.10
21 4 0.04
ACGTcount: A:0.68, C:0.02, G:0.19, T:0.11
Consensus pattern (18 bp):
TGAAAAAGAAAATGAAAA
Found at i:36832 original size:29 final size:27
Alignment explanation
Indices: 36687--36837 Score: 91
Period size: 27 Copynumber: 5.5 Consensus size: 27
36677 GGAGAAAGAG
* *
36687 ATTGAAAAAGAAATTGAAAGAAAACAAA
1 ATTGAAAAAGAAAATG-AAGAAAAGAAA
* *
36715 A-TGAAAATGAAAAAG-A-AAAAG-AA
1 ATTGAAAAAGAAAATGAAGAAAAGAAA
* * * *
36738 ATTGCAAAAGAAAAAGAAATCGAAAAAGTGAG
1 ATTGAAAAAGAAAATG-AA--G-AAAAG-AAA
36770 A--GAAAAAGAAAATGAAGAAAAGAAA
1 ATTGAAAAAGAAAATGAAGAAAAGAAA
*
36795 ATTGAAAAAGAAATTGAGAATGAAAA-AAA
1 ATTGAAAAAGAAAAT--GAA-GAAAAGAAA
36824 ATTGAAAAAGAAAA
1 ATTGAAAAAGAAAA
36838 AGCGAAAAAA
Statistics
Matches: 96, Mismatches: 13, Indels: 27
0.71 0.10 0.20
Matches are distributed among these distances:
23 3 0.03
24 16 0.17
25 3 0.03
26 6 0.06
27 23 0.24
28 1 0.01
29 21 0.22
30 21 0.22
32 2 0.02
ACGTcount: A:0.68, C:0.02, G:0.18, T:0.12
Consensus pattern (27 bp):
ATTGAAAAAGAAAATGAAGAAAAGAAA
Found at i:36838 original size:6 final size:6
Alignment explanation
Indices: 36703--36839 Score: 62
Period size: 6 Copynumber: 22.7 Consensus size: 6
36693 AAAGAAATTG
* * * ** *
36703 AAAG-A AAACAA AATGAA AATGAA AAAGAA AAAGAA ATTGCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
** ** * * *
36750 AAAGAA ATCGAA AAAGTG AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA
** * * **
36801 AAAGAA ATTGAG AATGAA AAA-AA ATTGAA AAAGAA AAAG
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG
36840 CGAAAAAAGA
Statistics
Matches: 93, Mismatches: 34, Indels: 9
0.68 0.25 0.07
Matches are distributed among these distances:
5 6 0.06
6 76 0.82
7 7 0.08
8 4 0.04
ACGTcount: A:0.69, C:0.02, G:0.18, T:0.10
Consensus pattern (6 bp):
AAAGAA
Found at i:36848 original size:57 final size:52
Alignment explanation
Indices: 36681--36890 Score: 174
Period size: 56 Copynumber: 3.9 Consensus size: 52
36671 AGAAAAGGAG
* *
36681 AAAGAGATTGAAAAAGAAATTGAAA-GAAAACAAAATGAAAATGAAAAAG-AA
1 AAAGAAATTGAAAAAGAAATTGAAATGAAAA-AAAATGAAAAAGAAAAAGAAA
* ** * *
36732 AAAGAAATTGCAAAAGAAAAAGAAATCGAAAAAGTGAGA-GAAAAAGAAAATGAAGA
1 AAAGAAATTGAAAAAGAAATTGAAAT-GAAAAA---AAATGAAAAAGAAAAAGAA-A
36788 AAAGAAAATTGAAAAAGAAATTGAGAATGAAAAAAAATTGAAAAAGAAAAAGCGAAA
1 AAAG-AAATTGAAAAAGAAATTGA-AATGAAAAAAAA-TGAAAAAGAAAAA--GAAA
* ** * ** *
36845 AAAGAAATTGAAAGAGAGCTTGAAAAGAAATCAAGTGAAAAAGAAA
1 AAAGAAATTGAAAAAGAAATTGAAATGAAAAAAAATGAAAAAGAAA
36891 GAGAGTCTGT
Statistics
Matches: 127, Mismatches: 19, Indels: 23
0.75 0.11 0.14
Matches are distributed among these distances:
51 21 0.17
52 1 0.01
53 5 0.04
54 24 0.19
55 11 0.09
56 32 0.25
57 27 0.21
58 6 0.05
ACGTcount: A:0.66, C:0.03, G:0.20, T:0.11
Consensus pattern (52 bp):
AAAGAAATTGAAAAAGAAATTGAAATGAAAAAAAATGAAAAAGAAAAAGAAA
Found at i:36891 original size:33 final size:33
Alignment explanation
Indices: 36854--36916 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
36844 AAAAGAAATT
36854 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTGT-AAAAGAAA-CAAGTGAAAAA
*
36887 GAAAGAGAGTCTGTAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTGTAAAAGAAACAAGTGAA
36917 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.27, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTGTAAAAGAAACAAGTGAAAAA
Found at i:39854 original size:12 final size:12
Alignment explanation
Indices: 39837--39964 Score: 57
Period size: 12 Copynumber: 10.7 Consensus size: 12
39827 CGAGAAAAGG
*
39837 AAAAGAGATTGA
1 AAAAGAAATTGA
39849 AAAAGAAATTG-
1 AAAAGAAATTGA
**
39860 -AAAGAAA-ACA
1 AAAAGAAATTGA
*
39870 AAAAGAAAATGA
1 AAAAGAAATTGA
**
39882 AAAAGAAAAAGA
1 AAAAGAAATTGA
** *
39894 AATTGCAAA-AGA
1 AAAAG-AAATTGA
*
39906 AAAAGAAATCGA
1 AAAAGAAATTGA
** **
39918 AAAAGTGAGAGA
1 AAAAGAAATTGA
*
39930 AAAAGAAAATGAA
1 AAAAGAAATTG-A
39943 GAAAAGAAAATTGA
1 -AAAAG-AAATTGA
39957 AAAAGAAA
1 AAAAGAAA
39965 AAGCGAAAAA
Statistics
Matches: 88, Mismatches: 20, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
10 7 0.08
11 10 0.11
12 51 0.58
13 9 0.10
14 6 0.07
15 5 0.06
ACGTcount: A:0.70, C:0.02, G:0.19, T:0.09
Consensus pattern (12 bp):
AAAAGAAATTGA
Found at i:39883 original size:6 final size:6
Alignment explanation
Indices: 39860--39967 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
39850 AAAGAAATTG
* * ** *
39860 AAAG-A AAACAA AAAGAA AATGAA AAAGAA AAAGAA ATTGCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
** ** * * *
39907 AAAGAA ATCGAA AAAGTG AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA
39958 AAAGAA AAAG
1 AAAGAA AAAG
39968 CGAAAAAAGA
Statistics
Matches: 75, Mismatches: 24, Indels: 7
0.71 0.23 0.07
Matches are distributed among these distances:
5 3 0.04
6 61 0.81
7 7 0.09
8 4 0.05
ACGTcount: A:0.71, C:0.03, G:0.19, T:0.07
Consensus pattern (6 bp):
AAAGAA
Found at i:39890 original size:18 final size:18
Alignment explanation
Indices: 39864--39967 Score: 93
Period size: 18 Copynumber: 5.6 Consensus size: 18
39854 AAATTGAAAG
*
39864 AAAACAAAAAGAAAATGA
1 AAAAGAAAAAGAAAATGA
* *
39882 AAAAGAAAAAGAAATTGC
1 AAAAGAAAAAGAAAATGA
39900 AAAAGAAAAAG-AAATCGA
1 AAAAGAAAAAGAAAAT-GA
** * *
39918 AAAAGTGAGAGAAAAAGA
1 AAAAGAAAAAGAAAATGA
*
39936 AAATGAAGAAAAGAAAATTGA
1 AAAAG-A-AAAAGAAAA-TGA
39957 AAAAGAAAAAG
1 AAAAGAAAAAG
39968 CGAAAAAAGA
Statistics
Matches: 66, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
17 3 0.05
18 41 0.62
19 8 0.12
20 8 0.12
21 6 0.09
ACGTcount: A:0.71, C:0.03, G:0.18, T:0.08
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:39949 original size:14 final size:13
Alignment explanation
Indices: 39928--39965 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
39918 AAAAGTGAGA
39928 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
39940 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
39955 GAAAAAGAAAA
1 GAAAAAGAAAA
39966 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:39979 original size:21 final size:21
Alignment explanation
Indices: 39929--39979 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
39919 AAAGTGAGAG
*
39929 AAAAAGAAAATGAAGAAAAGA
1 AAAAAGAAAAAGAAGAAAAGA
** *
39950 AAATTGAAAAAGAA-AAAGCGA
1 AAAAAGAAAAAGAAGAAA-AGA
39971 AAAAAGAAA
1 AAAAAGAAA
39980 TTGAAAGAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.06
Consensus pattern (21 bp):
AAAAAGAAAAAGAAGAAAAGA
Found at i:40019 original size:33 final size:33
Alignment explanation
Indices: 39982--40044 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
39972 AAAAGAAATT
39982 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTAT-AAAAGAAA-CAAGTGAAAAA
*
40015 GAAAGAGAGTCTATAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTATAAAAGAAACAAGTGAA
40045 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.25, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTATAAAAGAAACAAGTGAAAAA
Found at i:41842 original size:20 final size:20
Alignment explanation
Indices: 41819--41872 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
41809 AGTTTTTCCC
*
41819 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
41839 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
41859 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
41873 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:41854 original size:30 final size:30
Alignment explanation
Indices: 41819--41892 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
41809 AGTTTTTCCC
41819 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
41849 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
41879 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
41893 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:41882 original size:20 final size:20
Alignment explanation
Indices: 41819--41883 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
41809 AGTTTTTCCC
* * * *
41819 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
41839 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
41858 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
41879 AGCTC
1 AGCTC
41884 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:42609 original size:20 final size:20
Alignment explanation
Indices: 42586--42640 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
42576 TAGTTTTTCC
*
42586 GAGCTCGATTTAGCTCACAT
1 GAGCTCAATTTAGCTCACAT
* ***
42606 GAGCTTAATTTAGCTCGTTT
1 GAGCTCAATTTAGCTCACAT
42626 GAGCTCAATTTAGCT
1 GAGCTCAATTTAGCT
42641 TACTTTAGCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (20 bp):
GAGCTCAATTTAGCTCACAT
Found at i:42622 original size:30 final size:30
Alignment explanation
Indices: 42587--42660 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
42577 AGTTTTTCCG
42587 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
42617 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
42647 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
42661 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:42650 original size:20 final size:20
Alignment explanation
Indices: 42587--42651 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
42577 AGTTTTTCCG
* * * *
42587 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
42607 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
42626 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
42647 AGCTC
1 AGCTC
42652 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:42707 original size:768 final size:768
Alignment explanation
Indices: 41692--44031 Score: 4259
Period size: 768 Copynumber: 3.0 Consensus size: 768
41682 AGGGAGGGTA
*
41692 TGATGTGATCTCAATCGCATCATGTTGTGGCACCACTCATTGCTATCATGATTGGCCTAAACACG
1 TGATGTGATCTCAATCGCATCATGTTGTGGCACCACTCGTTGCTATCATGATTGGCCTAAACACG
* *
41757 AGGGCCCCAAGTGCACGATGAAGCTCAATCTCAGCTCAACAAGCTCAATCTTAGTTTTTCCCAGC
66 AGGGCCCCAAGTGCAAGATGAAGCTCAATCTCAGCTCAACAAGCTCAATCTTAGTTTTTCCGAGC
41822 TCGATTTAGCTCACATGAGCTTAATTTAGCTCGTTTGAGCTCAATTTAGCTTACTTTAGCTCGTT
131 TCGATTTAGCTCACATGAGCTTAATTTAGCTCGTTTGAGCTCAATTTAGCTTACTTTAGCTCGTT
41887 TGAGCTTGGCTTAAGTTTATTTCAACTCATTTATTTTAATGTCTGAATAAATTAAGTAATTTATT
196 TGAGCTTGGCTTAAGTTTATTTCAACTCATTTATTTTAATGTCTGAATAAATTAAGTAATTTATT
41952 AATTTAGCTTAAATTACTACAGCTCATAATTATGTTTTGACTTATTACATGTTTTAAATGTGTCT
261 AATTTAGCTTAAATTACTACAGCTCATAATTATGTTTTGACTTATTACATGTTTTAAATGTGTCT
*
42017 TGGCCGAATTTAATATGTCTTGTTAAGAATTTATTAAATTTGTCTAATTTAATTTATGTTTAATT
326 TGGCCGAATTTAATATGTCTTGTTAAGACTTTATTAAATTTGTCTAATTTAATTTATGTTTAATT
42082 AGTGTGTCTAAATTATATTAATGTTTGTTCAGCTGAATTTTATGTGATTTAATTTTGGTTCATGT
391 AGTGTGTCTAAATTATATTAATGTTTGTTCAGCTGAATTTTATGTGATTTAATTTTGGTTCATGT
* *
42147 GTTTTTGTAGGTGAGCTGAATTTGGAGAGTAATTAAACAAGGTTCATGCATGATAGGTTCAATGT
456 GTTTTTGTAGGTGAGCTGAATTTGGAGAGTAACTAAAAAAGGTTCATGCATGATAGGTTCAATGT
* *
42212 ATGGGACGGTGCATGTACGGCCTCTTTCAATGAATGGTGGCTGATCCATTTGGCTCCCCAAGGCA
521 ATGGGACGATGCATGTAAGGCCTCTTTCAATGAATGGTGGCTGATCCATTTGGCTCCCCAAGGCA
*
42277 CCTATTTGGCCAAAAGGTGTCCAGCAACTTAAAGCACAAGCTTGGCTGATCGTATTCCCAAGGCA
586 CCTATTTGGCCAAAAGGTGTCCAGCAACTTAAAGCACAAGCTTGGCCGATCGTATTCCCAAGGCA
42342 GCATCTAAGCCATTCACACCTCAATTTGACCAATCAGCTCCTATACATGTATGGGTGGATTCATG
651 GCATCTAAGCCATTCACACCTCAATTTGACCAATCAGCTCCTATACATGTATGGGTGGATTCATG
*
42407 AACGTCCAAAGGGAGGGAATATTACCTTAATTCATCATATTGAATGTATAATG
716 AACGTCCAAAGGGAGGGAATATTACCTTAATTCATCACATTGAATGTATAATG
42460 TGATGTGATCTCAATCGCATCATGTTGTGGCACCACTCGTTGCTATCATGATTGGCCTAAACACG
1 TGATGTGATCTCAATCGCATCATGTTGTGGCACCACTCGTTGCTATCATGATTGGCCTAAACACG
42525 AGGGCCCCAAGTGCAAGATGAAGCTCAATCTCAGCTCAACAAGCTCAATCTTAGTTTTTCCGAGC
66 AGGGCCCCAAGTGCAAGATGAAGCTCAATCTCAGCTCAACAAGCTCAATCTTAGTTTTTCCGAGC
42590 TCGATTTAGCTCACATGAGCTTAATTTAGCTCGTTTGAGCTCAATTTAGCTTACTTTAGCTCGTT
131 TCGATTTAGCTCACATGAGCTTAATTTAGCTCGTTTGAGCTCAATTTAGCTTACTTTAGCTCGTT
42655 TGAGCTTGGCTTAAGTTTATTTCAACTCATTTATTTTAATGTCTGAATAAATTAAGTAATTTATT
196 TGAGCTTGGCTTAAGTTTATTTCAACTCATTTATTTTAATGTCTGAATAAATTAAGTAATTTATT
42720 AATTTAGCTTAAATTACTACAGCTCATAATTATGTTTTGACTTATTACATGTTTTAAATGTGTCT
261 AATTTAGCTTAAATTACTACAGCTCATAATTATGTTTTGACTTATTACATGTTTTAAATGTGTCT
42785 TGGCCGAATTTAATATGTCTTGTTAAGACTTTATTAAATTTGTCTAATTTAATTTATGTTTAATT
326 TGGCCGAATTTAATATGTCTTGTTAAGACTTTATTAAATTTGTCTAATTTAATTTATGTTTAATT
42850 AGTGTGTCTAAATTATATTAATGTTTGTTCAGCTGAATTTTATGTGATTTAATTTTGGTTCATGT
391 AGTGTGTCTAAATTATATTAATGTTTGTTCAGCTGAATTTTATGTGATTTAATTTTGGTTCATGT
42915 GTTTTTGTAGGTGAGCTGAATTTGGAGAGTAACTAAAAAAGGTTCATGCATGATAGGTTCAATGT
456 GTTTTTGTAGGTGAGCTGAATTTGGAGAGTAACTAAAAAAGGTTCATGCATGATAGGTTCAATGT
42980 ATGGGACGATGCATGTAAGGCCTCTTTCAATGAATGGTGGCTGATCCATTTGGCTCCCCAAGGCA
521 ATGGGACGATGCATGTAAGGCCTCTTTCAATGAATGGTGGCTGATCCATTTGGCTCCCCAAGGCA
43045 CCTATTTGGCCAAAAGGTGTCCAGCAACTTAAAGCACAAGCTTGGCCGATCGTATTCCCAAGGCA
586 CCTATTTGGCCAAAAGGTGTCCAGCAACTTAAAGCACAAGCTTGGCCGATCGTATTCCCAAGGCA
43110 GCATCTAAGCCATTCACACCTCAATTTGACCAATCAGCTCCTATACATGTATGGGTGGATTCATG
651 GCATCTAAGCCATTCACACCTCAATTTGACCAATCAGCTCCTATACATGTATGGGTGGATTCATG
*
43175 AACGTCCAAAGGGAGGGAATATTACCTTAAATCATCACATTGAATGTATAATG
716 AACGTCCAAAGGGAGGGAATATTACCTTAATTCATCACATTGAATGTATAATG
*
43228 TGATGTGATCTCAATCGCATCATGTTGTGGCACCACTCGTTGCTATCATGATTGGCTTAAACACG
1 TGATGTGATCTCAATCGCATCATGTTGTGGCACCACTCGTTGCTATCATGATTGGCCTAAACACG
*
43293 AGGGCCCCAAGTGCAAGATGAAGCTCAATCTCAGTTCAACAAGCTCAATCTTAGTTTTTCCCAGC
66 AGGGCCCCAAGTGCAAGATGAAGCTCAATCTCAGCTCAACAAGCTCAATCTTAGTTTTT-----C
*
43358 TCGATTTAGCTCACATGAGCTTAATTTAGCTCGTTTGAGCTCACATGAGCTTACTTTAGCTCGTT
126 -CG----AGCT--C----G--------A-----TTT-AGCTCACATGAGCTTAATTTAGCTCGTT
43423 TGAGCTCAATTTAGCTTACTTTAGCTCGTTTGAGCTTGGCTTAAGTTTATTTCAACTCATTTATT
166 TGAGCTCAATTTAGCTTACTTTAGCTCGTTTGAGCTTGGCTTAAGTTTATTTCAACTCATTTATT
43488 TTAATGTCTGAATAAATTAAGTAATTTATTAATTTAGCTTAAATTACTACAGCTCATAATTATGT
231 TTAATGTCTGAATAAATTAAGTAATTTATTAATTTAGCTTAAATTACTACAGCTCATAATTATGT
43553 TTTGACTTATTACATGTTTTAAATGTGTCTTGGCCGAATTTAATATGTCTTGTTAAGACTTTATT
296 TTTGACTTATTACATGTTTTAAATGTGTCTTGGCCGAATTTAATATGTCTTGTTAAGACTTTATT
43618 AAATTTGTCTAATTTAATTTATGTTTAATTAGTGTGTCTAAATTATATTAATGTTTGTTCAGCTG
361 AAATTTGTCTAATTTAATTTATGTTTAATTAGTGTGTCTAAATTATATTAATGTTTGTTCAGCTG
43683 AATTTTATGTGATTTAATTTTGGTTCATGTGTTTTTGTAGGTGAGCTGAATTTGGAGAGTAACTA
426 AATTTTATGTGATTTAATTTTGGTTCATGTGTTTTTGTAGGTGAGCTGAATTTGGAGAGTAACTA
43748 AAAAAGGTTCATGCATGATAGGTTCAATGTATGGGACGATGCATGTAAGGCCTCTTTCAATGAA-
491 AAAAAGGTTCATGCATGATAGGTTCAATGTATGGGACGATGCATGTAAGGCCTCTTTCAATGAAT
43812 GGTGGCTGATCCATTTGGCTCCCCAAGGCACCTATTTGGCCAAAAGGTGTCCAGCAACTTAAAGC
556 GGTGGCTGATCCATTTGGCTCCCCAAGGCACCTATTTGGCCAAAAGGTGTCCAGCAACTTAAAGC
43877 ACAAGCTTGGCCGATCGTATTCCCAAGGCAGCATCTAAGCCATTCACACCTCAATTTGACCAATC
621 ACAAGCTTGGCCGATCGTATTCCCAAGGCAGCATCTAAGCCATTCACACCTCAATTTGACCAATC
*
43942 GGCTCCTATACATGTATGGGTGGATTCATGAACGTCCAAAGGGAGGGAATATTACCTTAATTCAT
686 AGCTCCTATACATGTATGGGTGGATTCATGAACGTCCAAAGGGAGGGAATATTACCTTAATTCAT
44007 CACATTGAATGTATAATG
751 CACATTGAATGTATAATG
44025 TGCATGT
1 TG-ATGT
44032 ACAAAGGGGA
Statistics
Matches: 1525, Mismatches: 16, Indels: 32
0.97 0.01 0.02
Matches are distributed among these distances:
768 879 0.58
773 1 0.00
774 2 0.00
778 4 0.00
780 1 0.00
784 1 0.00
792 1 0.00
797 216 0.14
798 420 0.28
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (768 bp):
TGATGTGATCTCAATCGCATCATGTTGTGGCACCACTCGTTGCTATCATGATTGGCCTAAACACG
AGGGCCCCAAGTGCAAGATGAAGCTCAATCTCAGCTCAACAAGCTCAATCTTAGTTTTTCCGAGC
TCGATTTAGCTCACATGAGCTTAATTTAGCTCGTTTGAGCTCAATTTAGCTTACTTTAGCTCGTT
TGAGCTTGGCTTAAGTTTATTTCAACTCATTTATTTTAATGTCTGAATAAATTAAGTAATTTATT
AATTTAGCTTAAATTACTACAGCTCATAATTATGTTTTGACTTATTACATGTTTTAAATGTGTCT
TGGCCGAATTTAATATGTCTTGTTAAGACTTTATTAAATTTGTCTAATTTAATTTATGTTTAATT
AGTGTGTCTAAATTATATTAATGTTTGTTCAGCTGAATTTTATGTGATTTAATTTTGGTTCATGT
GTTTTTGTAGGTGAGCTGAATTTGGAGAGTAACTAAAAAAGGTTCATGCATGATAGGTTCAATGT
ATGGGACGATGCATGTAAGGCCTCTTTCAATGAATGGTGGCTGATCCATTTGGCTCCCCAAGGCA
CCTATTTGGCCAAAAGGTGTCCAGCAACTTAAAGCACAAGCTTGGCCGATCGTATTCCCAAGGCA
GCATCTAAGCCATTCACACCTCAATTTGACCAATCAGCTCCTATACATGTATGGGTGGATTCATG
AACGTCCAAAGGGAGGGAATATTACCTTAATTCATCACATTGAATGTATAATG
Found at i:43390 original size:30 final size:30
Alignment explanation
Indices: 43355--43458 Score: 158
Period size: 30 Copynumber: 3.5 Consensus size: 30
43345 AGTTTTTCCC
*
43355 AGCTCGATTT-AGCTCACATGAGCTTAATTT
1 AGCTCG-TTTGAGCTCACATGAGCTTACTTT
43385 AGCTCGTTTGAGCTCACATGAGCTTACTTT
1 AGCTCGTTTGAGCTCACATGAGCTTACTTT
*
43415 AGCTCGTTTGAGCTCA-ATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCACA-TGAGCTTACTTT
43445 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
43459 TGGCTTAAGT
Statistics
Matches: 70, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
29 4 0.06
30 66 0.94
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.38
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCACATGAGCTTACTTT
Found at i:49624 original size:11 final size:12
Alignment explanation
Indices: 49608--49637 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
49598 AGAGAGAAAG
49608 AAAAAAATTGAA
1 AAAAAAATTGAA
49620 AAAAAAATTGAA
1 AAAAAAATTGAA
49632 AAAAAA
1 AAAAAA
49638 GAGAAGAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (12 bp):
AAAAAAATTGAA
Found at i:49636 original size:43 final size:42
Alignment explanation
Indices: 49565--49645 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 42
49555 AAAAAAATTC
*
49565 AAAAAAAGTGAAAAAAAATCGAGCAAAAAAAAGAGAGAGAAAG
1 AAAAAAAGTGAAAAAAAATCGAGAAAAAAAAAGA-AGAGAAAG
* * *
49608 AAAAAAATTGAAAAAAAAATTGA-AAAAAAAGAGAAGAG
1 AAAAAAAGTG-AAAAAAAATCGAGAAAAAAAAAGAAGAG
49646 GATTTCGTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
42 4 0.12
43 18 0.55
44 11 0.33
ACGTcount: A:0.72, C:0.02, G:0.19, T:0.07
Consensus pattern (42 bp):
AAAAAAAGTGAAAAAAAATCGAGAAAAAAAAAGAAGAGAAAG
Found at i:51761 original size:40 final size:40
Alignment explanation
Indices: 51713--52300 Score: 1005
Period size: 40 Copynumber: 14.7 Consensus size: 40
51703 GCAAACACCT
* * *
51713 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
51753 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
51793 TTGCCTTCGGGTCATAGCCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
51833 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
51873 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
51913 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
51953 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
51993 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
52033 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
52073 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
52113 TTGCCTTCGGGTCTTAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
52153 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
52193 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
52233 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
52273 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
52301 TCCAATGCTC
Statistics
Matches: 517, Mismatches: 31, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 517 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:59501 original size:40 final size:40
Alignment explanation
Indices: 59453--60040 Score: 1005
Period size: 40 Copynumber: 14.7 Consensus size: 40
59443 GCAAACACCT
* * *
59453 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
59493 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
59533 TTGCCTTCGGGTCATAGCCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
59573 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
59613 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
59653 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
59693 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
59733 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
59773 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
59813 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
59853 TTGCCTTCGGGTCTTAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
59893 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
59933 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
59973 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
60013 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
60041 TCCAATGCTC
Statistics
Matches: 517, Mismatches: 31, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 517 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Done.