Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold845
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: 129140
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 1 of 2
Found at i:2751 original size:7 final size:7
Alignment explanation
Indices: 2733--2770 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
2723 CGTTACACCC
2733 AAAAACA
1 AAAAACA
2740 AAAAA-A
1 AAAAACA
2746 ACAAAACA
1 A-AAAACA
2754 AAAAACA
1 AAAAACA
2761 AAAAA-A
1 AAAAACA
2767 AAAA
1 AAAA
2771 TAGCAAACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 7 0.24
7 20 0.69
8 2 0.07
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAACA
Found at i:2753 original size:14 final size:14
Alignment explanation
Indices: 2734--2770 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
2724 GTTACACCCA
2734 AAAACAAAAAAAAC
1 AAAACAAAAAAAAC
2748 AAAAC--AAAAAAC
1 AAAACAAAAAAAAC
2760 AAAA-AAAAAAA
1 AAAACAAAAAAA
2771 TAGCAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 11 0.52
13 5 0.24
14 5 0.24
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAACAAAAAAAAC
Found at i:2770 original size:12 final size:12
Alignment explanation
Indices: 2739--2770 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
2729 ACCCAAAAAC
2739 AAAAAAAACAAA
1 AAAAAAAACAAA
*
2751 ACAAAAAACAAA
1 AAAAAAAACAAA
2763 AAAAAAAA
1 AAAAAAAA
2771 TAGCAAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAACAAA
Found at i:4079 original size:28 final size:28
Alignment explanation
Indices: 4019--4405 Score: 313
Period size: 28 Copynumber: 13.6 Consensus size: 28
4009 ATCGATCCCG
*
4019 TTCAAAGCCCAC-A-TCA-TGGCATCGCT
1 TTCAAAGCCCACAAGTCAGTGGCA-CTCT
*
4045 TTC-AAGCCCACAAATCAGTGGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCT
4072 TTCAAAGCCCACAAGTCAGTGGCACAT-T
1 TTCAAAGCCCACAAGTCAGTGGCAC-TCT
4100 GTTCAAAGCCCACAAGTCA-TGGCACTCTTTT
1 -TTCAAAGCCCACAAGTCAGTGGCACTC---T
*
4131 TTCAAAGCCCACAAGTCAGTGGCCAACCCT
1 TTCAAAGCCCACAAGTCAGTGG-C-ACTCT
* *
4161 TTCAAAGCCCACACG-CATTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACT-CT
4188 TTC-AAGACCCA-AA-TCCAGTGGCACTCCT
1 TTCAAAG-CCCACAAGT-CAGTGGCACT-CT
* *
4216 TTCAAAGCCCACAAGCCAGTGGAACTCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCT
* *
4244 TTCAAAGCCCAACAAATCAGTGGCACGCCTT
1 TTCAAAGCCC-ACAAGTCAGTGGCAC-TC-T
* *
4275 TTC-AAG-CCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCT
*
4301 GTTCAAAGCCCAC-AGTCAATGGCACTCCT
1 -TTCAAAGCCCACAAGTCAGTGGCACT-CT
*
4330 TTCAAAGAAGCCCACAAGTCAGCGGCACTCTT
1 TTC--A-AAGCCCACAAGTCAGTGGCACTC-T
*
4362 TTCAAAGCCCA-ACA-TCAGTGGCAACCCTT
1 TTCAAAGCCCACA-AGTCAGTGGC-ACTC-T
4391 TTC-AAGCCCACAAGT
1 TTCAAAGCCCACAAGT
4406 TTAGGTGGGC
Statistics
Matches: 301, Mismatches: 23, Indels: 71
0.76 0.06 0.18
Matches are distributed among these distances:
25 8 0.03
26 9 0.03
27 32 0.11
28 101 0.34
29 76 0.25
30 39 0.13
31 17 0.06
32 16 0.05
33 3 0.01
ACGTcount: A:0.29, C:0.33, G:0.16, T:0.21
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCT
Found at i:4344 original size:31 final size:32
Alignment explanation
Indices: 4306--4368 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
4296 ACCCTGTTCA
*
4306 AAGCCCAC-AGTCAATGGCACTCCTTTCAAAG
1 AAGCCCACAAGTCAACGGCACTCCTTTCAAAG
* *
4337 AAGCCCACAAGTCAGCGGCACTCTTTTCAAAG
1 AAGCCCACAAGTCAACGGCACTCCTTTCAAAG
4369 CCCAACATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 8 0.29
32 20 0.71
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.19
Consensus pattern (32 bp):
AAGCCCACAAGTCAACGGCACTCCTTTCAAAG
Found at i:4508 original size:63 final size:63
Alignment explanation
Indices: 4430--4937 Score: 428
Period size: 63 Copynumber: 7.9 Consensus size: 63
4420 GTTCATAGCC
* * *
4430 CACAGGTCGGTGGCAACCCAGTTCAAAGCCCACACAAGTCGGTAGC-ACCCATGTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCA-TTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
4493 CACAAGTCGGTGGCAAAACCC-TTCCAAGCCCACACAGAGTCGG-GGCAAACCCATTTC-AAG-C
1 CACAAGTCGGTGGC--AACCCATTCAAAGCCCACACA-AGTCGGTGGC-AACCCATTTCAAAGCC
4554 CA
62 CA
4556 CACAAGTCGGTGGGCAAACCCCATTCCAAAG-CCACAC-AGTCCCGGTGGCAACCCA-TTCAAAA
1 CACAAGTCGGT-GGC-AA-CCCATT-CAAAGCCCACACAAGT--CGGTGGCAACCCATTTC-AAA
4618 GCCCAA
59 GCCC-A
* * *
4624 CACGAAGTCCGGT-GCAACCCATTCCAAAGCCC-CGCAATTCGGTGGC-ACCCATTCCAAAGCCC
1 CAC-AAGT-CGGTGGCAACCCATT-CAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCC
4686 A
63 A
* * *
4687 CGCAA-TGGCGTGGGCAACCCATTCCAAAG-CCACGCAAAG-CGGTGGCAACCCCATTTCGAAAG
1 CACAAGTCG-GT-GGCAACCCATT-CAAAGCCCACAC-AAGTCGGTGGCAA-CCCATTTC-AAAG
4749 -CCA
60 CCCA
*
4752 CACAAGTCGGTGGGCAAACCCAGTGTCAAAAGCCCACACAAGT-GGTGGCAACCCATTTCAAA-A
1 CACAAGTCGGT-GGC-AACCCA-T-TC-AAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGC
4815 CCA
61 CCA
* *
4818 CACAAGTC-GTGGCAACCC-TGCCAAAGCCC-CACAAGTC-GTGGCAACTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCAT-TCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * ** * *
4878 CACAAGTCGGTGGCAACCCATTTAAAAGCCAATGCAAGTCAGTGGCCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCA-TTCAAAGCCCACACAAGTCGGTGG-CAACCCATTTCAAA
4938 TCACCATTGT
Statistics
Matches: 375, Mismatches: 25, Indels: 88
0.77 0.05 0.18
Matches are distributed among these distances:
59 24 0.06
60 19 0.05
61 16 0.04
62 10 0.03
63 90 0.24
64 40 0.11
65 73 0.19
66 50 0.13
67 18 0.05
68 22 0.06
69 9 0.02
70 4 0.01
ACGTcount: A:0.31, C:0.34, G:0.20, T:0.14
Consensus pattern (63 bp):
CACAAGTCGGTGGCAACCCATTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:4900 original size:32 final size:32
Alignment explanation
Indices: 4430--4937 Score: 430
Period size: 32 Copynumber: 15.8 Consensus size: 32
4420 GTTCATAGCC
* *
4430 CACAGGTCGGTGGCAACCCAGTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
4462 CACAAGTCGGTAGC-ACCCATGTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
4493 CACAAGTCGGTGGCAAAACCC--TTCCAAGCCCA
1 CACAAGTCGGTGGC--AACCCATTTCAAAGCCCA
4525 CACAGAGTCGG-GGCAAACCCATTTC-AAG-CCA
1 CACA-AGTCGGTGGC-AACCCATTTCAAAGCCCA
*
4556 CACAAGTCGGTGGGCAAACCCCATTCCAAAG-CCA
1 CACAAGTCGGT-GGC-AA-CCCATTTCAAAGCCCA
4590 CAC-AGTCCCGGTGGCAACCCA-TTCAAAAGCCCAA
1 CACAAGT--CGGTGGCAACCCATTTC-AAAGCCC-A
*
4624 CACGAAGTCCGGT-GCAACCCATTCCAAAGCCC-
1 CAC-AAGT-CGGTGGCAACCCATTTCAAAGCCCA
* * *
4656 CGCAATTCGGTGGC-ACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
4687 CGCAA-TGGCGTGGGCAACCCATTCCAAAG-CCA
1 CACAAGTCG-GT-GGCAACCCATTTCAAAGCCCA
*
4719 CGCAAAG-CGGTGGCAACCCCATTTCGAAAG-CCA
1 CAC-AAGTCGGTGGCAA-CCCATTTC-AAAGCCCA
*
4752 CACAAGTCGGTGGGCAAACCCAGTGTCAAAAGCCCA
1 CACAAGTCGGT-GGC-AACCCA-TTTC-AAAGCCCA
*
4788 CACAAGT-GGTGGCAACCCATTTCAAA-ACCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
**
4818 CACAAGTC-GTGGCAACCC-TGCCAAAGCCC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
4847 CACAAGTC-GTGGCAACTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
4878 CACAAGTCGGTGGCAACCCATTTAAAAGCCAA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * *
4910 TGCAAGTCAGTGGCCAACCCTTTTCAAA
1 CACAAGTCGGTGG-CAACCCATTTCAAA
4938 TCACCATTGT
Statistics
Matches: 404, Mismatches: 34, Indels: 75
0.79 0.07 0.15
Matches are distributed among these distances:
29 22 0.05
30 59 0.15
31 71 0.18
32 101 0.25
33 70 0.17
34 45 0.11
35 23 0.06
36 13 0.03
ACGTcount: A:0.31, C:0.34, G:0.20, T:0.14
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:6158 original size:20 final size:19
Alignment explanation
Indices: 6114--6159 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
6104 CTCTTAGTCC
*
6114 CTACAACCATCCATCATCT
1 CTACACCCATCCATCATCT
6133 -TAACACCCATCCAATCATCT
1 CT-ACACCCATCC-ATCATCT
6153 CTACACC
1 CTACACC
6160 ATACTATAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 9 0.39
20 12 0.52
21 1 0.04
ACGTcount: A:0.33, C:0.43, G:0.00, T:0.24
Consensus pattern (19 bp):
CTACACCCATCCATCATCT
Found at i:6161 original size:19 final size:18
Alignment explanation
Indices: 6114--6161 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 18
6104 CTCTTAGTCC
6114 CTACAACCATCCATCATCT
1 CTAC-ACCATCCATCATCT
6133 -TAACACCCATCCAATCATCT
1 CT-ACA-CCATCC-ATCATCT
6153 CTACACCAT
1 CTACACCAT
6162 ACTATAACCG
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
18 2 0.08
19 12 0.48
20 10 0.40
21 1 0.04
ACGTcount: A:0.33, C:0.42, G:0.00, T:0.25
Consensus pattern (18 bp):
CTACACCATCCATCATCT
Found at i:16968 original size:19 final size:19
Alignment explanation
Indices: 16944--16982 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
16934 GGGTTATAGT
16944 ATGGGTAGAGATGGATTGG
1 ATGGGTAGAGATGGATTGG
16963 ATGGGTAGAGATGGATTGG
1 ATGGGTAGAGATGGATTGG
16982 A
1 A
16983 GTGGTGTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.46, T:0.26
Consensus pattern (19 bp):
ATGGGTAGAGATGGATTGG
Found at i:17605 original size:20 final size:20
Alignment explanation
Indices: 17558--17632 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
17548 AAAAAGACAT
*
17558 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
17577 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
17598 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
17618 AATGTATCGATACAT
1 AATGTATCGATACAT
17633 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:17626 original size:40 final size:39
Alignment explanation
Indices: 17555--17632 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
17545 GGTAAAAAGA
* *
17555 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
17594 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
17633 CAGGGTATGA
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:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:23846 original size:28 final size:28
Alignment explanation
Indices: 23812--23960 Score: 158
Period size: 28 Copynumber: 5.3 Consensus size: 28
23802 AACTTTTTCA
23812 AAGTCCACGATTCAGGGCATTCCTTTTT
1 AAGTCCACGATTCAGGGCATTCCTTTTT
*
23840 AAGTCCACGATTCAGGGCATTCCCTTTT
1 AAGTCCACGATTCAGGGCATTCCTTTTT
* *
23868 AAGTTCACGATTCAGGGGCATTCCCTTTT
1 AAGTCCACGATTCA-GGGCATTCCTTTTT
* * * *
23897 AAGTCCACAACTCCGTGGCA-CCCTTTTT
1 AAGTCCACGATTCAG-GGCATTCCTTTTT
* * * *
23925 AAGTCCACAACTCCGTGGCA-CCCTTTTT
1 AAGTCCACGATTCAG-GGCATTCCTTTTT
23953 AAGTCCAC
1 AAGTCCAC
23961 AACTCTGTGG
Statistics
Matches: 111, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
28 83 0.75
29 28 0.25
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.31
Consensus pattern (28 bp):
AAGTCCACGATTCAGGGCATTCCTTTTT
Found at i:23961 original size:28 final size:28
Alignment explanation
Indices: 23893--24400 Score: 672
Period size: 28 Copynumber: 18.3 Consensus size: 28
23883 GGGCATTCCC
23893 TTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTTAAGTCCACAACTCCGTGGCACCCT
23921 TTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTTAAGTCCACAACTCCGTGGCACCCT
*
23949 TTTTAAGTCCACAACTCTGTGGCACCCT
1 TTTTAAGTCCACAACTCCGTGGCACCCT
* *
23977 TTTAAAATCCACAACTCCGTGGCACCCT
1 TTTTAAGTCCACAACTCCGTGGCACCCT
* * *
24005 TTTAAAATCCACAAATCCGTGGCA-CCT
1 TTTTAAGTCCACAACTCCGTGGCACCCT
* * *
24032 TTTTAAAGTCCACAACTCGGCGACA-CCT
1 TTTT-AAGTCCACAACTCCGTGGCACCCT
*
24060 TTTTAAAGTCCACAACTCCGTGGTA-CCT
1 TTTT-AAGTCCACAACTCCGTGGCACCCT
*
24088 TTTTAAGTCCATAACTCCGTGGCACCCT
1 TTTTAAGTCCACAACTCCGTGGCACCCT
* *
24116 TTTTAAGTCCACAACTCTGTGGCATCCT
1 TTTTAAGTCCACAACTCCGTGGCACCCT
* **
24144 TTTAAAGTCCACAACTCTATGGCACCC-
1 TTTTAAGTCCACAACTCCGTGGCACCCT
*
24171 TTTTAAGTCCACAACTCCGTGGCACCAT
1 TTTTAAGTCCACAACTCCGTGGCACCCT
* *
24199 TTTAAAGTCCATAACTCCGTGGCACCCT
1 TTTTAAGTCCACAACTCCGTGGCACCCT
* * *
24227 TTTAAAGTCCACAACTCTGTGGCATCC-
1 TTTTAAGTCCACAACTCCGTGGCACCCT
24254 TTTTAAGGTCCACAACTCCGTGGCACCC-
1 TTTTAA-GTCCACAACTCCGTGGCACCCT
* * * *
24282 TTTTAAGACCACAACTCTGCGGTACCC-
1 TTTTAAGTCCACAACTCCGTGGCACCCT
24309 TTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTTAAGTCCACAACTCCGTGGCACCCT
* *
24337 TTTAAAGTCCACAACTCCATGGCACCC-
1 TTTTAAGTCCACAACTCCGTGGCACCCT
*
24364 TTTTAAGTTCACAACTCCGTGGCACCCT
1 TTTTAAGTCCACAACTCCGTGGCACCCT
24392 TTTTAAGTC
1 TTTTAAGTC
24401 TAAGTCGATG
Statistics
Matches: 424, Mismatches: 50, Indels: 12
0.87 0.10 0.02
Matches are distributed among these distances:
27 116 0.27
28 308 0.73
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (28 bp):
TTTTAAGTCCACAACTCCGTGGCACCCT
Found at i:24110 original size:111 final size:110
Alignment explanation
Indices: 23890--24400 Score: 688
Period size: 111 Copynumber: 4.6 Consensus size: 110
23880 CAGGGGCATT
* *
23890 CCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTTA
1 CCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCC-TTTTA
* *
23954 AGTCCACAACTCTGTGGCACCCTTTTAAAATCCACAACTCCGTGGCA
65 AGTCCACAACTCCGTGGCA-CCTTTTAAAGTCCACAACTCCGTGGCA
* * * * * *
24001 CCCTTTTAAAATCCACAAATCCGTGGCA-CCTTTTTAAAGTCCACAACTCGGCGACACCTTTTTA
1 CCCTTTTAAAGTCCACAACTCCGTGGCATCC-TTTTAAAGTCCACAACTCCGTGGCACCCTTTT-
* * *
24065 AAGTCCACAACTCCGTGGTACCTTTTTAAGTCCATAACTCCGTGGCA
64 AAGTCCACAACTCCGTGGCACCTTTTAAAGTCCACAACTCCGTGGCA
* * **
24112 CCCTTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAAGTCCACAACTCTATGGCACCCTTTTAA
1 CCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAA
*
24177 GTCCACAACTCCGTGGCACCATTTTAAAGTCCATAACTCCGTGGCA
66 GTCCACAACTCCGTGGCACC-TTTTAAAGTCCACAACTCCGTGGCA
* *
24223 CCCTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGGTCCACAACTCCGTGGCACCCTTTTAA
1 CCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAA
* * * *
24288 GACCACAACTCTGCGGTACCCTTTT-AAGTCCACAACTCCGTGGCA
66 GTCCACAACTCCGTGGCA-CCTTTTAAAGTCCACAACTCCGTGGCA
* * *
24333 CCCTTTTAAAGTCCACAACTCCATGGCACCCTTTT-AAGTTCACAACTCCGTGGCACCCTTTTTA
1 CCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCC-TTTTA
24397 AGTC
65 AGTC
24401 TAAGTCGATG
Statistics
Matches: 355, Mismatches: 38, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
109 21 0.06
110 80 0.23
111 191 0.54
112 63 0.18
ACGTcount: A:0.25, C:0.33, G:0.14, T:0.29
Consensus pattern (110 bp):
CCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAA
GTCCACAACTCCGTGGCACCTTTTAAAGTCCACAACTCCGTGGCA
Found at i:24438 original size:32 final size:32
Alignment explanation
Indices: 24402--24966 Score: 586
Period size: 32 Copynumber: 17.6 Consensus size: 32
24392 TTTTAAGTCT
* *
24402 AAGTCGATGGCAAACCTTCTTAAAGCCCACAC
1 AAGTCGGTGGCAACCCTTCTTAAAGCCCACAC
* * *
24434 AAGTCGGTGGTAACCCTT-TTCAAAGCCTACAA
1 AAGTCGGTGGCAACCCTTCTT-AAAGCCCACAC
* * * *
24466 AAATCAGTGGCAACCCTTCTCAAAGCCTACAC
1 AAGTCGGTGGCAACCCTTCTTAAAGCCCACAC
*
24498 AAATCGGTGGCAACCCTT-TTCAAAGCCCACAC
1 AAGTCGGTGGCAACCCTTCTT-AAAGCCCACAC
* * *
24530 AAGTAGGTGGCAACCCTTCTCAAAGTCCACAC
1 AAGTCGGTGGCAACCCTTCTTAAAGCCCACAC
*
24562 AAGTCGGTGGCAACCCTT-TTCAAAACCCACAC
1 AAGTCGGTGGCAACCCTTCTT-AAAGCCCACAC
*
24594 AAGTCGGTGGCAACCCTTCTCAAAGCCCACAC
1 AAGTCGGTGGCAACCCTTCTTAAAGCCCACAC
*
24626 AAGTCAGTGGCAACCCTTCTTAAAGCCCACAC
1 AAGTCGGTGGCAACCCTTCTTAAAGCCCACAC
* *
24658 AAGTCGGTGGCAACCCTTCTCAAAGCTCACAC
1 AAGTCGGTGGCAACCCTTCTTAAAGCCCACAC
*
24690 AAGTCAGTGGCAACCCTTCTTAAAGCCCACAC
1 AAGTCGGTGGCAACCCTTCTTAAAGCCCACAC
* *
24722 AAGTCGGTGACAA-CCTTTTTCAAAGCCCACAC
1 AAGTCGGTGGCAACCCTTCTT-AAAGCCCACAC
* * * *
24754 AAGTTGGTGGCAACCCTTTTTAAAGCCTACAT
1 AAGTCGGTGGCAACCCTTCTTAAAGCCCACAC
* * * * *
24786 AAGTCGATGGTAACCCTTTTTAAAACCCACAT
1 AAGTCGGTGGCAACCCTTCTTAAAGCCCACAC
* * * * *
24818 AAGTCGGTGGTAA-CTTTTTTCAAAGCTCACAT
1 AAGTCGGTGGCAACCCTTCTT-AAAGCCCACAC
* * * *
24850 AAGTCGATGGCAACCATT-TTCAAAACCCATAC
1 AAGTCGGTGGCAACCCTTCTT-AAAGCCCACAC
* * *
24882 AAGTCGATGGCAACCCTTTTTTAAAGCCCACAT
1 AAGTCGGTGGCAACCC-TTCTTAAAGCCCACAC
* * *
24915 AAGTTGGTGGCAA-CCTACTTTAAAGCCCGCAC
1 AAGTCGGTGGCAACCCTTC-TTAAAGCCCACAC
* *
24947 AAATCGATGGCAACCCTTCT
1 AAGTCGGTGGCAACCCTTCT
24967 AAGCTCAATG
Statistics
Matches: 451, Mismatches: 68, Indels: 28
0.82 0.12 0.05
Matches are distributed among these distances:
31 17 0.04
32 394 0.87
33 38 0.08
34 2 0.00
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.22
Consensus pattern (32 bp):
AAGTCGGTGGCAACCCTTCTTAAAGCCCACAC
Found at i:25709 original size:7 final size:7
Alignment explanation
Indices: 25693--25731 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
25683 AAAACAATAA
25693 AAAAAAT
1 AAAAAAT
*
25700 AAAAATT
1 AAAAAAT
25707 AAAAAAT
1 AAAAAAT
25714 CAAAAAAAT
1 --AAAAAAT
25723 AAAAAAT
1 AAAAAAT
25730 AA
1 AA
25732 TAATATTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 21 0.75
9 7 0.25
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAAAT
Found at i:25709 original size:16 final size:16
Alignment explanation
Indices: 25688--25734 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
25678 AAATTAAAAC
25688 AATAAAAAA-AATAAA
1 AATAAAAAATAATAAA
25703 AATTAAAAAATCAA-AAA
1 AA-TAAAAAAT-AATAAA
25720 AATAAAAAATAATAA
1 AATAAAAAATAATAA
25735 TATTCAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.14
16 17 0.61
17 5 0.18
18 2 0.07
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (16 bp):
AATAAAAAATAATAAA
Found at i:25729 original size:24 final size:24
Alignment explanation
Indices: 25677--25727 Score: 86
Period size: 23 Copynumber: 2.2 Consensus size: 24
25667 TTTTTTATAT
25677 AAAATTAAAACAATAAAAAAAATA
1 AAAATTAAAACAATAAAAAAAATA
*
25701 AAAATTAAAA-AATCAAAAAAATA
1 AAAATTAAAACAATAAAAAAAATA
25724 AAAA
1 AAAA
25728 ATAATAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (24 bp):
AAAATTAAAACAATAAAAAAAATA
Found at i:28818 original size:69 final size:69
Alignment explanation
Indices: 28704--28858 Score: 195
Period size: 69 Copynumber: 2.2 Consensus size: 69
28694 CCTTCGAGGG
* *
28704 GATACTCTAA-CTCCGTTTTTAAACTCATCAAAATTTAAATATTATTTGGGCTAAATTATAATTG
1 GATACTCTAACCT-CATTTTTAAACTCATCAAAATTTAAATATTATTTGGGCCAAATTATAATTG
28768 TCGAA
65 TCGAA
** * * * * *
28773 GATACTCTAACCTCATTTTTAAACTCATTGAAATTTAATTCTTATTTTGTCCAAATTATTATTGT
1 GATACTCTAACCTCATTTTTAAACTCATCAAAATTTAAATATTATTTGGGCCAAATTATAATTGT
*
28838 CGGA
66 CGAA
*
28842 GATACTCTAACCCCATT
1 GATACTCTAACCTCATT
28859 CCTTTGAGGA
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
69 72 0.97
70 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (69 bp):
GATACTCTAACCTCATTTTTAAACTCATCAAAATTTAAATATTATTTGGGCCAAATTATAATTGT
CGAA
Found at i:32801 original size:16 final size:16
Alignment explanation
Indices: 32780--32812 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
32770 ATTACTTCAT
32780 GTAATTTGGGTCATTG
1 GTAATTTGGGTCATTG
32796 GTAATTTGGGTCATTG
1 GTAATTTGGGTCATTG
32812 G
1 G
32813 GCTTAGGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.33, T:0.42
Consensus pattern (16 bp):
GTAATTTGGGTCATTG
Found at i:37612 original size:13 final size:13
Alignment explanation
Indices: 37594--37618 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37584 TTACGATTTG
37594 TTAAATATTAACT
1 TTAAATATTAACT
37607 TTAAATATTAAC
1 TTAAATATTAAC
37619 GATAAAAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAATATTAACT
Found at i:37815 original size:21 final size:20
Alignment explanation
Indices: 37784--37826 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
37774 TGTGATTTTG
37784 CTTTTTAATTTAATTTTGTAAT
1 CTTTTTAATTT-ATTTT-TAAT
37806 CTTTTT-ATTTATTTTTAAT
1 CTTTTTAATTTATTTTTAAT
37825 CT
1 CT
37827 GTTCTTAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
20 5 0.24
21 4 0.19
22 6 0.29
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.67
Consensus pattern (20 bp):
CTTTTTAATTTATTTTTAAT
Found at i:38646 original size:22 final size:22
Alignment explanation
Indices: 38620--38693 Score: 62
Period size: 23 Copynumber: 3.1 Consensus size: 22
38610 TTCAGATTAA
38620 TTATTTAATAATAAAAATAATT
1 TTATTTAATAATAAAAATAATT
38642 TTATTTAAATTTAATTAAAAA-ATATAT
1 TTATTT-AA--TAA-TAAAAATA-AT-T
*
38669 TAATATTAAT-ATAAAAATAATT
1 TTAT-TTAATAATAAAAATAATT
38691 TTA
1 TTA
38694 AATTTTTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 16
0.70 0.03 0.27
Matches are distributed among these distances:
22 9 0.21
23 10 0.24
24 2 0.05
25 5 0.12
26 8 0.19
27 6 0.14
28 2 0.05
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TTATTTAATAATAAAAATAATT
Found at i:38733 original size:30 final size:30
Alignment explanation
Indices: 38672--38733 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
38662 AATATATTAA
* *
38672 TATTAATATAAAAATAATTTTAAATTTTTT
1 TATTAATATAAAAATAATATTAAATATTTT
* *
38702 TATTAATTTATAAATAATAATTAAA-ATTTT
1 TATTAATATAAAAATAAT-ATTAAATATTTT
38732 TA
1 TA
38734 AATTAAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
TATTAATATAAAAATAATATTAAATATTTT
Found at i:38739 original size:32 final size:32
Alignment explanation
Indices: 38678--38739 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
38668 TTAATATTAA
* **
38678 TATAAAAATAATTTTAAATTTTTTTATTAATT
1 TATAAAAATAATTTAAAATTTTTAAATTAATT
38710 TATAAATAATAA-TTAAAATTTTTAAATTAA
1 TATAAA-AATAATTTAAAATTTTTAAATTAA
38740 ATTAAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 21 0.81
33 5 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (32 bp):
TATAAAAATAATTTAAAATTTTTAAATTAATT
Found at i:38744 original size:19 final size:20
Alignment explanation
Indices: 38706--38749 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
38696 TTTTTTTATT
38706 AATTTATAAATAATAATTAA
1 AATTTATAAATAATAATTAA
* *
38726 AATTTTTAAATTA-AATT-A
1 AATTTATAAATAATAATTAA
38744 AATTTA
1 AATTTA
38750 ACTTAAACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 6 0.29
19 4 0.19
20 11 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTTATAAATAATAATTAA
Found at i:39605 original size:26 final size:26
Alignment explanation
Indices: 39576--39628 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
39566 ATAAATATTT
39576 TAAAATATTT-TTTATTA-ATTTAAAAA
1 TAAAATATTTATTT-TTATA-TTAAAAA
39602 TAAAATATTTATTTTTATATTAAAAA
1 TAAAATATTTATTTTTATATTAAAAA
39628 T
1 T
39629 TAATTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
TAAAATATTTATTTTTATATTAAAAA
Found at i:40475 original size:7 final size:7
Alignment explanation
Indices: 40457--40490 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
40447 AATAAATTAT
40457 TTATACTA
1 TTATA-TA
40465 TTATATA
1 TTATATA
40472 TTATATA
1 TTATATA
40479 TTATATA
1 TTATATA
40486 TTATA
1 TTATA
40491 ATTTTAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 21 0.81
8 5 0.19
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (7 bp):
TTATATA
Found at i:47196 original size:12 final size:12
Alignment explanation
Indices: 47181--47210 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
47171 ATTTATACTC
47181 ATATTTAAATAT
1 ATATTTAAATAT
*
47193 ATATTAAAATAT
1 ATATTTAAATAT
47205 ATATTT
1 ATATTT
47211 TTTTTAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATATTTAAATAT
Found at i:47703 original size:16 final size:16
Alignment explanation
Indices: 47665--47704 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 16
47655 TTATAATTAA
47665 ATTTAAA-T-AAAAAT
1 ATTTAAATTAAAAAAT
47679 A-TT-AATTAAAAAAT
1 ATTTAAATTAAAAAAT
47693 ATTTAAATTAAA
1 ATTTAAATTAAA
47705 CTACATCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 2 0.09
13 3 0.14
14 8 0.36
15 2 0.09
16 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTTAAATTAAAAAAT
Found at i:49438 original size:19 final size:19
Alignment explanation
Indices: 49416--49452 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
49406 AAAAATAACT
49416 AATTAAATTAATTAATTTC
1 AATTAAATTAATTAATTTC
*
49435 AATTTAATTAATTAATTT
1 AATTAAATTAATTAATTT
49453 TTTACTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
AATTAAATTAATTAATTTC
Found at i:54249 original size:26 final size:25
Alignment explanation
Indices: 54220--54281 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
54210 CTATTTTTTT
*
54220 AAATATTTATTTTTAAT-ATAAATATA
1 AAATATTTATTTTAAATAAT-AAT-TA
**
54246 AAATATAAATTTTAAATAATAATTA
1 AAATATTTATTTTAAATAATAATTA
54271 AATATATTTAT
1 AA-ATATTTAT
54282 ATTCAGTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
25 4 0.14
26 23 0.79
27 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AAATATTTATTTTAAATAATAATTA
Found at i:54262 original size:13 final size:13
Alignment explanation
Indices: 54216--54263 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
54206 CTTTCTATTT
**
54216 TTTTAAATATTTA
1 TTTTAAATATAAA
*
54229 TTTTTAATATAAA
1 TTTTAAATATAAA
* *
54242 TATAAAATATAAA
1 TTTTAAATATAAA
54255 TTTTAAATA
1 TTTTAAATA
54264 ATAATTAAAT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTTAAATATAAA
Found at i:54499 original size:24 final size:25
Alignment explanation
Indices: 54467--54523 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 25
54457 GTAAGTTAAA
54467 AAATATAATTATTTAAAT-TAAAAT
1 AAATATAATTATTTAAATATAAAAT
* * *
54491 AAATTTAATTTTTTTAATATAAAAAAT
1 AAATATAA-TTATTTAA-ATATAAAAT
54518 AAATAT
1 AAATAT
54524 TTTATTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 7 0.27
25 7 0.27
26 2 0.08
27 10 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
AAATATAATTATTTAAATATAAAAT
Found at i:55593 original size:19 final size:18
Alignment explanation
Indices: 55569--55614 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
55559 ATTAATAACT
55569 TATATTATATAGATTTTAA
1 TATATTATATA-ATTTTAA
* *
55588 TATATTCATATATTTTTAT
1 TATATT-ATATAATTTTAA
55607 TATATTAT
1 TATATTAT
55615 TATTTGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 17 0.71
20 5 0.21
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
TATATTATATAATTTTAA
Found at i:55770 original size:23 final size:23
Alignment explanation
Indices: 55744--55788 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
55734 TTGTGTATTA
55744 ATGTCATATTTAAATTATTTTTT
1 ATGTCATATTTAAATTATTTTTT
* *
55767 ATGTCATATTTTAGTTATTTTT
1 ATGTCATATTTAAATTATTTTT
55789 CTGGGTTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.27, C:0.04, G:0.07, T:0.62
Consensus pattern (23 bp):
ATGTCATATTTAAATTATTTTTT
Found at i:56252 original size:22 final size:22
Alignment explanation
Indices: 56227--56271 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
56217 TATAATATGT
** *
56227 AATTTTATACTTAAATATATAA
1 AATTTTATAAATAAATAAATAA
56249 AATTTTATAAATAAATAAATAA
1 AATTTTATAAATAAATAAATAA
56271 A
1 A
56272 TATATTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTTTATAAATAAATAAATAA
Found at i:56849 original size:23 final size:22
Alignment explanation
Indices: 56823--56871 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
56813 TTAGTATATA
56823 TATATATATAT-ATATGTAATTTT
1 TATATA-ATATGATAT-TAATTTT
*
56846 TATATAATATGATATTTATTTT
1 TATATAATATGATATTAATTTT
56868 TATA
1 TATA
56872 ATTTTTTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (22 bp):
TATATAATATGATATTAATTTT
Found at i:56938 original size:73 final size:72
Alignment explanation
Indices: 56851--56994 Score: 207
Period size: 73 Copynumber: 2.0 Consensus size: 72
56841 ATTTTTATAT
* * *
56851 AATATGATATTTATTTTTATAATTTTTTAGTATTAACGTAAATTTTTTTATAAATATAATATAAT
1 AATACGATATTTATTTTTATAATTTTTTAGTATTAACATAAAATTTTTTA-AAATATAATATAAT
56916 TAACATGC
65 TAACATGC
* * * * *
56924 AATACGATATTTATTTTTATGATTTTTTATTATTAATATAAAATTTTTTAAAATGTAATGTAATT
1 AATACGATATTTATTTTTATAATTTTTTAGTATTAACATAAAATTTTTTAAAATATAATATAATT
56989 AACATG
66 AACATG
56995 TAAAATCACT
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
72 19 0.30
73 44 0.70
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (72 bp):
AATACGATATTTATTTTTATAATTTTTTAGTATTAACATAAAATTTTTTAAAATATAATATAATT
AACATGC
Found at i:57673 original size:19 final size:19
Alignment explanation
Indices: 57651--57701 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
57641 ATATTCGATA
* * *
57651 TAAATATATTTTATTTTTT
1 TAAATATTTTTTATATATT
*
57670 TAAATTTTTTTTATATATT
1 TAAATATTTTTTATATATT
57689 TAAATATTTTTTA
1 TAAATATTTTTTA
57702 AATAAAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TAAATATTTTTTATATATT
Found at i:57723 original size:20 final size:21
Alignment explanation
Indices: 57698--57739 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
57688 TTAAATATTT
57698 TTTAAATAAAAATATTT-ATA
1 TTTAAATAAAAATATTTGATA
* *
57718 TTTAAATATATATATTTGATA
1 TTTAAATAAAAATATTTGATA
57739 T
1 T
57740 AAATATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TTTAAATAAAAATATTTGATA
Found at i:57724 original size:14 final size:14
Alignment explanation
Indices: 57707--57752 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
57697 TTTTAAATAA
*
57707 AAATATTTATATTT
1 AAATATATATATTT
57721 AAATATATATATTT
1 AAATATATATATTT
* *
57735 -GATATAAATA-TT
1 AAATATATATATTT
57747 AAATAT
1 AAATAT
57753 GATAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
12 2 0.07
13 12 0.44
14 13 0.48
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (14 bp):
AAATATATATATTT
Found at i:59610 original size:52 final size:52
Alignment explanation
Indices: 59532--59636 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
59522 AATTATTTCT
59532 ACGTTTTTTCATGTCTTTTGAGTATTTGTGTAGAATCATATCCTCACACCCC
1 ACGTTTTTTCATGTCTTTTGAGTATTTGTGTAGAATCATATCCTCACACCCC
*
59584 ACGTTTTTTCATGTCTTTTGAGTATTTGTGTAGAATCATATCCTCATACCCC
1 ACGTTTTTTCATGTCTTTTGAGTATTTGTGTAGAATCATATCCTCACACCCC
59636 A
1 A
59637 TATTCGGATA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (52 bp):
ACGTTTTTTCATGTCTTTTGAGTATTTGTGTAGAATCATATCCTCACACCCC
Found at i:62001 original size:23 final size:23
Alignment explanation
Indices: 61970--62047 Score: 59
Period size: 23 Copynumber: 3.4 Consensus size: 23
61960 TAGAATTCGG
* *
61970 TTCGGTTTTTTTATGGTATCAAA
1 TTCGATTTTTATATGGTATCAAA
* * * **
61993 TTCGATTTTAAAAT-TTAAGAATA
1 TTCGATTTTTATATGGTATCAA-A
* *
62016 TTCGGTTTTTGTATGGTATCAAA
1 TTCGATTTTTATATGGTATCAAA
62039 TTCGATTTT
1 TTCGATTTT
62048 AAAATTTAAG
Statistics
Matches: 38, Mismatches: 15, Indels: 4
0.67 0.26 0.07
Matches are distributed among these distances:
22 4 0.11
23 30 0.79
24 4 0.11
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.50
Consensus pattern (23 bp):
TTCGATTTTTATATGGTATCAAA
Found at i:62021 original size:46 final size:46
Alignment explanation
Indices: 61970--62063 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
61960 TAGAATTCGG
*
61970 TTCGGTTTTTTTATGGTATCAAATTCGATTTTAAAATTTAAGAATA
1 TTCGGTTTTTGTATGGTATCAAATTCGATTTTAAAATTTAAGAATA
62016 TTCGGTTTTTGTATGGTATCAAATTCGATTTTAAAATTTAAGAATA
1 TTCGGTTTTTGTATGGTATCAAATTCGATTTTAAAATTTAAGAATA
62062 TT
1 TT
62064 GCATATTAAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (46 bp):
TTCGGTTTTTGTATGGTATCAAATTCGATTTTAAAATTTAAGAATA
Found at i:62470 original size:14 final size:14
Alignment explanation
Indices: 62449--62479 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
62439 ATGGTTTTTG
62449 AAAAAAAATTTTAA
1 AAAAAAAATTTTAA
62463 AAATAAAAATTTTAA
1 AAA-AAAAATTTTAA
62478 AA
1 AA
62480 TTTTAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 3 0.19
15 13 0.81
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAAAAAATTTTAA
Found at i:62492 original size:9 final size:8
Alignment explanation
Indices: 62453--62491 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
62443 TTTTTGAAAA
62453 AAAATTTT
1 AAAATTTT
* *
62461 AAAA-ATA
1 AAAATTTT
62468 AAAATTTT
1 AAAATTTT
62476 AAAATTTT
1 AAAATTTT
62484 AAAATTTT
1 AAAATTTT
62492 TTATGCTGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
7 5 0.19
8 21 0.81
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAAATTTT
Found at i:63026 original size:18 final size:18
Alignment explanation
Indices: 62987--63032 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
62977 ATATAATTTG
*
62987 TTAATTTA-TT-ATTAAA
1 TTAATTTATTTAATGAAA
*
63003 TGAATTTATTTAATGAAA
1 TTAATTTATTTAATGAAA
*
63021 TTAATTTTTTTA
1 TTAATTTATTTA
63033 TTCATAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 7 0.29
17 2 0.08
18 15 0.62
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (18 bp):
TTAATTTATTTAATGAAA
Found at i:63224 original size:15 final size:16
Alignment explanation
Indices: 63193--63226 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
63183 TTTTAAACCT
63193 TTTATATTTTATCTAA
1 TTTATATTTTATCTAA
*
63209 TTTATA-TTTATTTAA
1 TTTATATTTTATCTAA
63224 TTT
1 TTT
63227 TGATATAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATATTTTATCTAA
Found at i:65226 original size:65 final size:65
Alignment explanation
Indices: 65112--65236 Score: 196
Period size: 65 Copynumber: 1.9 Consensus size: 65
65102 GATACAAGGT
* *
65112 ACTCTCAACTCGACGATAAACATTCTTACTCAAAAGAATGATGCTCTCGAAGTCATGATGAAAGA
1 ACTCTCAACTCGACGATAAACATTCTTACTCAAAAGAATAATGCCCTCGAAGTCATGATGAAAGA
** * *
65177 ACTCTCAACTCGGTGATAAACATTTTTACTCAGAAGAATAATGCCCTCGAAGTCATGATG
1 ACTCTCAACTCGACGATAAACATTCTTACTCAAAAGAATAATGCCCTCGAAGTCATGATG
65237 GAGGCCATGC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (65 bp):
ACTCTCAACTCGACGATAAACATTCTTACTCAAAAGAATAATGCCCTCGAAGTCATGATGAAAGA
Found at i:65887 original size:12 final size:12
Alignment explanation
Indices: 65870--65894 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65860 CCAAATCCAG
65870 TAGCTTTCAAGT
1 TAGCTTTCAAGT
65882 TAGCTTTCAAGT
1 TAGCTTTCAAGT
65894 T
1 T
65895 CACTAAGGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (12 bp):
TAGCTTTCAAGT
Found at i:67498 original size:19 final size:17
Alignment explanation
Indices: 67474--67509 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
67464 TACCATTTAA
67474 ATTAAAATTCTAAAAAATT
1 ATTAAAA-T-TAAAAAATT
67493 ATTAAAATTAAAAAATT
1 ATTAAAATTAAAAAATT
67510 GAGAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 1 0.06
19 7 0.41
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTAAAATTAAAAAATT
Found at i:68231 original size:23 final size:22
Alignment explanation
Indices: 68204--68246 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
68194 TAGCTAGCCC
68204 ATATTATTATTTAAATATTAAAA
1 ATATTATTATTTAAAT-TTAAAA
*
68227 ATATTTTTATTTAAATTTAA
1 ATATTATTATTTAAATTTAA
68247 TTATAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATATTATTATTTAAATTTAAAA
Found at i:69628 original size:25 final size:25
Alignment explanation
Indices: 69577--69631 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
69567 ATCAGTGTGA
* *
69577 TATAAATAGTAAAATATATTTATATT
1 TATAAATAG-AAAATAAATTTAAATT
69603 TATAAATA-AAAATAAAATTTAAATT
1 TATAAATAGAAAAT-AAATTTAAATT
69628 TATA
1 TATA
69632 TAAATATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 5 0.19
25 13 0.50
26 8 0.31
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
TATAAATAGAAAATAAATTTAAATT
Found at i:69821 original size:17 final size:16
Alignment explanation
Indices: 69801--69866 Score: 69
Period size: 18 Copynumber: 3.7 Consensus size: 16
69791 AAGAAAAGAC
69801 AATATAATAAAAAATAT
1 AATAT-ATAAAAAATAT
69818 AATATGATGAAAAAATAT
1 AATAT-AT-AAAAAATAT
69836 AATATATAAAAATAATAT
1 AATATAT-AAAA-AATAT
69854 AAATATATCAAAA
1 -AATATAT-AAAA
69867 TTTATTAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
17 13 0.30
18 19 0.44
19 11 0.26
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.29
Consensus pattern (16 bp):
AATATATAAAAAATAT
Found at i:69832 original size:18 final size:17
Alignment explanation
Indices: 69809--69866 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 17
69799 ACAATATAAT
*
69809 AAAAAATATAATATGATG
1 AAAAAATATAATAT-ATA
69827 AAAAAATATAATATATA
1 AAAAAATATAATATATA
69844 AAAATAATATAAATATATCA
1 AAAA-AATAT-AATATAT-A
69864 AAA
1 AAA
69867 TTTATTAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
17 6 0.17
18 19 0.53
19 7 0.19
20 4 0.11
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (17 bp):
AAAAAATATAATATATA
Found at i:69878 original size:18 final size:19
Alignment explanation
Indices: 69802--69878 Score: 63
Period size: 18 Copynumber: 4.2 Consensus size: 19
69792 AGAAAAGACA
*
69802 ATATAATAAAAAATA-TAAT
1 ATATAA-AAATAATATTAAT
*
69821 ATGATGAAAA-AATA-TAAT
1 AT-ATAAAAATAATATTAAT
*
69839 ATATAAAAATAATATAAAT
1 ATATAAAAATAATATTAAT
* *
69858 ATATCAAAAT-TTATTAAT
1 ATATAAAAATAATATTAAT
69876 ATA
1 ATA
69879 AATTATTAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
17 6 0.12
18 23 0.47
19 17 0.35
20 3 0.06
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (19 bp):
ATATAAAAATAATATTAAT
Found at i:69915 original size:27 final size:26
Alignment explanation
Indices: 69870--69927 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
69860 ATCAAAATTT
* *
69870 ATTAATATAAATTATTAAT-TTATTAAA
1 ATTAATATAAATAAATAATATT-TT-AA
69897 ATTAATATAAATAAATAATATTTTAA
1 ATTAATATAAATAAATAATATTTTAA
69923 ATTAA
1 ATTAA
69928 ATTATAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 7 0.25
27 19 0.68
28 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
ATTAATATAAATAAATAATATTTTAA
Found at i:71256 original size:29 final size:29
Alignment explanation
Indices: 71199--71256 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
71189 TCAAATCATT
* *
71199 ATTTAATAATTAAAAATATTTTTATTTAA
1 ATTTAATAATTAAAAATATATTAATTTAA
*
71228 ATTTAATTA-TAAAAATATATTAATATTAA
1 ATTTAATAATTAAAAATATATTAAT-TTAA
71257 TATCAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
ATTTAATAATTAAAAATATATTAATTTAA
Found at i:72490 original size:20 final size:20
Alignment explanation
Indices: 72465--72504 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
72455 TCGAATATGC
72465 GTCAAACAATGAAAAAGTGT
1 GTCAAACAATGAAAAAGTGT
*
72485 GTCAAACAATTAAAAAGTGT
1 GTCAAACAATGAAAAAGTGT
72505 TGGAGATAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.23
Consensus pattern (20 bp):
GTCAAACAATGAAAAAGTGT
Found at i:74045 original size:52 final size:53
Alignment explanation
Indices: 73954--74060 Score: 146
Period size: 52 Copynumber: 2.0 Consensus size: 53
73944 CCCAATTTTG
* *
73954 GGTCATAACGCTCATACTTGCACCTTTAAACCTGCAAACTCGAGCCA-TAAAA
1 GGTCATAACGCCCATACTTGCACCTTTAAAACTGCAAACTCGAGCCATTAAAA
* * *
74006 GGTCGTAACGCCCATACTTGCACCTTTAAAGAC-GGAAACTTGAGCCATTAAAA
1 GGTCATAACGCCCATACTTGCACCTTTAAA-ACTGCAAACTCGAGCCATTAAAA
74059 GG
1 GG
74061 CTGATTATAG
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
52 40 0.83
53 8 0.17
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (53 bp):
GGTCATAACGCCCATACTTGCACCTTTAAAACTGCAAACTCGAGCCATTAAAA
Found at i:74965 original size:33 final size:33
Alignment explanation
Indices: 74918--75008 Score: 155
Period size: 33 Copynumber: 2.8 Consensus size: 33
74908 CCCAATGGAA
*
74918 CAATATATATATATATATATATATAATTGGACC
1 CAATGTATATATATATATATATATAATTGGACC
*
74951 CAATGTATATATATATATATATAAAATTGGACC
1 CAATGTATATATATATATATATATAATTGGACC
*
74984 CAATGTGTATATATATATATATATA
1 CAATGTATATATATATATATATATA
75009 TATATATATA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.40
Consensus pattern (33 bp):
CAATGTATATATATATATATATATAATTGGACC
Found at i:74998 original size:2 final size:2
Alignment explanation
Indices: 74991--75024 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
74981 ACCCAATGTG
74991 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
75025 AAATTAAGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:75125 original size:12 final size:12
Alignment explanation
Indices: 75100--75155 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
75090 AAGATTGAAA
* *
75100 AAATATTATCAT
1 AAATAATATAAT
75112 AAATAATATAAT
1 AAATAATATAAT
*
75124 -AATACTAATAAT
1 AAATAAT-ATAAT
*
75136 AAATAAAATAGAT
1 AAATAATATA-AT
75149 AAATAAT
1 AAATAAT
75156 GGTTTCTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
11 5 0.14
12 18 0.51
13 12 0.34
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (12 bp):
AAATAATATAAT
Found at i:76480 original size:28 final size:29
Alignment explanation
Indices: 76441--76499 Score: 68
Period size: 31 Copynumber: 2.0 Consensus size: 29
76431 AATACTTATA
76441 AATTATATATAAT-GTTAATATCTGAATC
1 AATTATATATAATAGTTAATATCTGAATC
*
76469 AATTATGA-ATAATAAATTTAATATCTGAATC
1 AATTAT-ATATAAT--AGTTAATATCTGAATC
76500 TATAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
28 11 0.42
29 1 0.04
31 14 0.54
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.41
Consensus pattern (29 bp):
AATTATATATAATAGTTAATATCTGAATC
Found at i:77419 original size:3 final size:3
Alignment explanation
Indices: 77411--77448 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
77401 TTGTTGACAT
77411 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
77449 TTTTGTTTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:77559 original size:20 final size:19
Alignment explanation
Indices: 77534--77573 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
77524 AAAATATTAT
77534 TTTTAT-ATTAATATTTTAAA
1 TTTTATAATTAA-A-TTTAAA
77554 TTTTATAATTAAATTTAAA
1 TTTTATAATTAAATTTAAA
77573 T
1 T
77574 AAAAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 7 0.37
21 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTATAATTAAATTTAAA
Found at i:78007 original size:13 final size:13
Alignment explanation
Indices: 77991--78016 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
77981 TGATTAACAT
77991 AAAAAATTAAATA
1 AAAAAATTAAATA
78004 AAAAAATTAAATA
1 AAAAAATTAAATA
78017 CTATACTTAT
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAAAATTAAATA
Found at i:80143 original size:11 final size:11
Alignment explanation
Indices: 80129--80213 Score: 56
Period size: 11 Copynumber: 8.1 Consensus size: 11
80119 ATTTATAAAT
*
80129 TTTTTATGTTA
1 TTTTTATATTA
80140 TTTTTATATTA
1 TTTTTATATTA
*
80151 TATTTATA-TA
1 TTTTTATATTA
**
80161 AATTT-TATTA
1 TTTTTATATTA
*
80171 TTTTATAAATT-
1 TTTT-TATATTA
*
80182 TTTGTTACA-TA
1 TTT-TTATATTA
80193 -TTTTA-ATTA
1 TTTTTATATTA
80202 TTTTTATATTA
1 TTTTTATATTA
80213 T
1 T
80214 ATAATTATTA
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
8 1 0.02
9 7 0.12
10 18 0.31
11 29 0.49
12 4 0.07
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (11 bp):
TTTTTATATTA
Found at i:80354 original size:8 final size:8
Alignment explanation
Indices: 80341--80394 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
80331 ATTATAAATT
80341 TTAATATA
1 TTAATATA
80349 TTAATA-A
1 TTAATATA
80356 TT-ATATGA
1 TTAATAT-A
*
80364 TATAA-ATT
1 T-TAATATA
80372 TTAATATA
1 TTAATATA
*
80380 TTTATATA
1 TTAATATA
80388 TTAATAT
1 TTAATAT
80395 TATATTTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
6 3 0.08
7 6 0.16
8 24 0.65
9 3 0.08
10 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (8 bp):
TTAATATA
Found at i:80370 original size:31 final size:33
Alignment explanation
Indices: 80333--80399 Score: 102
Period size: 31 Copynumber: 2.1 Consensus size: 33
80323 CATGTTTAAT
80333 TATAAATTTTAATATATTAATA-ATT-ATATGA
1 TATAAATTTTAATATATTAATATATTAATATGA
* *
80364 TATAAATTTTAATATATTTATATATTAATATTA
1 TATAAATTTTAATATATTAATATATTAATATGA
80397 TAT
1 TAT
80400 TTTATTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 21 0.66
32 3 0.09
33 8 0.25
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (33 bp):
TATAAATTTTAATATATTAATATATTAATATGA
Found at i:80380 original size:14 final size:14
Alignment explanation
Indices: 80327--80380 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
80317 AATAATCATG
80327 TTTAAT-TATAAAT
1 TTTAATATATAAAT
*
80340 TTTAATATATTAAT
1 TTTAATATATAAAT
*
80354 AATTATATGATATAAAT
1 -TTTA-AT-ATATAAAT
80371 TTTAATATAT
1 TTTAATATAT
80381 TTATATATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
13 6 0.18
14 10 0.30
15 5 0.15
16 5 0.15
17 7 0.21
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (14 bp):
TTTAATATATAAAT
Found at i:80394 original size:6 final size:5
Alignment explanation
Indices: 80345--80453 Score: 52
Period size: 5 Copynumber: 22.2 Consensus size: 5
80335 TAAATTTTAA
* * * *
80345 TATAT TAATAAT TATAT GATA- TAAAT TTTAA TATAT T-TA- TATAT TAATAT
1 TATAT T-AT-AT TATAT TATAT TATAT TATAT TATAT TATAT TATAT T-ATAT
* * * *
80395 TATAT TTTAT TAT-T TATTT TATAT TATAT TTTAAT TA-AT T-TTT TA-AT
1 TATAT TATAT TATAT TATAT TATAT TATAT TAT-AT TATAT TATAT TATAT
80442 TATAT TCATAT T
1 TATAT T-ATAT T
80454 TTATAATTGT
Statistics
Matches: 77, Mismatches: 15, Indels: 23
0.67 0.13 0.20
Matches are distributed among these distances:
3 1 0.01
4 18 0.23
5 38 0.49
6 17 0.22
7 3 0.04
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:80398 original size:19 final size:19
Alignment explanation
Indices: 80344--80429 Score: 61
Period size: 19 Copynumber: 4.5 Consensus size: 19
80334 ATAAATTTTA
*
80344 ATATATTAATAATTATATGAT
1 ATATATTAAT-ATTATAT-TT
* * *
80365 ATAAATT-TTAATATATTT
1 ATATATTAATATTATATTT
80383 ATATATTAATATTATATTT
1 ATATATTAATATTATATTT
* *
80402 -TATTATTTATTTTATA-TT
1 ATA-TATTAATATTATATTT
*
80420 ATATTTTAAT
1 ATATATTAAT
80430 TAATTTTTTA
Statistics
Matches: 51, Mismatches: 11, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
18 16 0.31
19 28 0.55
20 1 0.02
21 6 0.12
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (19 bp):
ATATATTAATATTATATTT
Found at i:80418 original size:24 final size:24
Alignment explanation
Indices: 80391--80447 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
80381 TTATATATTA
*
80391 ATATTATATTTT-ATTATTTATTTT
1 ATATTATATTTTAATTAATT-TTTT
80415 ATATTATATTTTAATTAATTTTTT
1 ATATTATATTTTAATTAATTTTTT
80439 A-ATTATATT
1 ATATTATATT
80448 CATATTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 8 0.26
24 17 0.55
25 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
ATATTATATTTTAATTAATTTTTT
Found at i:80427 original size:17 final size:18
Alignment explanation
Indices: 80376--80458 Score: 73
Period size: 19 Copynumber: 4.6 Consensus size: 18
80366 TAAATTTTAA
*
80376 TATATTTATATATTAATAT
1 TATATTT-TATATTTATAT
*
80395 TATATTTTATTATTTATTT
1 TATATTTTA-TATTTATAT
*
80414 TATATTATAT-TTTA-AT
1 TATATTTTATATTTATAT
* *
80430 TA-ATTTTTTAATTATAT
1 TATATTTTATATTTATAT
80447 TCATATTTTATA
1 T-ATATTTTATA
80459 ATTGTAATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
15 5 0.10
16 6 0.12
17 7 0.14
18 4 0.08
19 29 0.57
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (18 bp):
TATATTTTATATTTATAT
Found at i:80738 original size:33 final size:33
Alignment explanation
Indices: 80701--80787 Score: 93
Period size: 38 Copynumber: 2.5 Consensus size: 33
80691 TATGTTTAAT
*
80701 TTATTAAAATAAAATAAAATTATAATAACATAA
1 TTATTAAAATAAAATAAAATAATAATAACATAA
**
80734 TTATTTTTAAAAATTAAAATAAAATAATTTTAACATAA
1 TTA---TT-AAAA-TAAAATAAAATAATAATAACATAA
*
80772 TTAATAAAATAAAATA
1 TTATTAAAATAAAATA
80788 TTATAAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
33 10 0.22
34 4 0.09
35 1 0.02
36 2 0.04
37 4 0.09
38 24 0.53
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (33 bp):
TTATTAAAATAAAATAAAATAATAATAACATAA
Found at i:81611 original size:24 final size:24
Alignment explanation
Indices: 81584--81631 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
81574 ATTAATTTAA
** *
81584 ATTTGAATTTTGATAATAATAAAT
1 ATTTGAATTTAAATAATAAAAAAT
81608 ATTTGAATTTAAATAATAAAAAAT
1 ATTTGAATTTAAATAATAAAAAAT
81632 TTAAATATTT
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:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (24 bp):
ATTTGAATTTAAATAATAAAAAAT
Found at i:82692 original size:16 final size:17
Alignment explanation
Indices: 82671--82713 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
82661 TTTATTTTTT
82671 TAATTAATCATAT-TTA
1 TAATTAATCATATATTA
*
82687 TAATTAAT-ATTTATTA
1 TAATTAATCATATATTA
82703 TAATT-ATCATA
1 TAATTAATCATA
82714 ATAATATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATTAATCATATATTA
Found at i:85179 original size:22 final size:24
Alignment explanation
Indices: 85146--85192 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
85136 AATATGATAG
85146 TTAATTTCAATTAAAAT-TGTATT
1 TTAATTTCAATTAAAATATGTATT
85169 TTAATTT-AATTAAAATATGTATT
1 TTAATTTCAATTAAAATATGTATT
85192 T
1 T
85193 AATGATAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (24 bp):
TTAATTTCAATTAAAATATGTATT
Found at i:85193 original size:22 final size:23
Alignment explanation
Indices: 85136--85195 Score: 79
Period size: 22 Copynumber: 2.6 Consensus size: 23
85126 TTAAAATATT
*
85136 AATATGATAGTTAATTTCAATTAA
1 AATATG-TATTTAATTTCAATTAA
85160 AAT-TGTATTTTAATTT-AATTAA
1 AATATGTA-TTTAATTTCAATTAA
85182 AATATGTATTTAAT
1 AATATGTATTTAAT
85196 GATAAAGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 17 0.52
23 13 0.39
24 3 0.09
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (23 bp):
AATATGTATTTAATTTCAATTAA
Found at i:85874 original size:5 final size:5
Alignment explanation
Indices: 85857--85914 Score: 57
Period size: 5 Copynumber: 11.6 Consensus size: 5
85847 AAGGGAGAGG
* * *
85857 AAAGG AAAGA AAATA AAAGA AAAGA AAA-A AAAGA AATGTA AAAGA AAA-A
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAG-A AAAGA AAAGA
85906 AATAGA AAA
1 AA-AGA AAA
85915 TTGTGATTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
4 7 0.16
5 30 0.68
6 7 0.16
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.07
Consensus pattern (5 bp):
AAAGA
Found at i:86409 original size:18 final size:19
Alignment explanation
Indices: 86383--86422 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
86373 TTATTTTTCA
86383 TATTATTTTACATTTTAAT
1 TATTATTTTACATTTTAAT
* *
86402 TATT-TTTTATATTTTATT
1 TATTATTTTACATTTTAAT
86420 TAT
1 TAT
86423 GTTGTATCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (19 bp):
TATTATTTTACATTTTAAT
Found at i:87925 original size:14 final size:14
Alignment explanation
Indices: 87906--87936 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
87896 ATAGGATTAT
87906 TTAAATTATTTTTA
1 TTAAATTATTTTTA
87920 TTAAATTATTTTTA
1 TTAAATTATTTTTA
87934 TTA
1 TTA
87937 TAAATATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTAAATTATTTTTA
Found at i:87949 original size:32 final size:33
Alignment explanation
Indices: 87902--87981 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
87892 CACTATAGGA
*
87902 TTATT-TAAAT-T-ATTTTTATTAAATT-ATTT
1 TTATTATAAATATAATTTTTAATAAATTAATTT
*
87931 TTATTATAAATATAATTTTTAATAATTTAATTT
1 TTATTATAAATATAATTTTTAATAAATTAATTT
* *
87964 TTAATATAATTATAATTT
1 TTATTATAAATATAATTT
87982 AGTAATTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 5 0.12
30 5 0.12
31 1 0.02
32 12 0.28
33 20 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (33 bp):
TTATTATAAATATAATTTTTAATAAATTAATTT
Found at i:87972 original size:33 final size:33
Alignment explanation
Indices: 87913--88063 Score: 121
Period size: 33 Copynumber: 4.5 Consensus size: 33
87903 TATTTAAATT
* * *
87913 ATTTTTATTAAATTATT-TTTATTATAAATATA
1 ATTTTTAATAATTTATTATTTAATATAAATATA
*
87945 ATTTTTAATAATTTAATT-TTTAATATAATTATA
1 ATTTTTAATAATTT-ATTATTTAATATAAATATA
* * * *
87978 ATTTAGTAATTAA-TTATTATTTAACATTAATA-C
1 ATTT-TTAA-TAATTTATTATTTAATATAAATATA
*
88011 ATTTTTAATTTATATTTTATTATTTAATATAAATTTA
1 ATTTTTAA--TA-A-TTTATTATTTAATATAAATATA
*
88048 ATTTTTAATTATTTAT
1 ATTTTTAATAATTTAT
88064 CCTTATATAC
Statistics
Matches: 95, Mismatches: 15, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
32 15 0.16
33 35 0.37
34 17 0.18
35 4 0.04
36 16 0.17
37 8 0.08
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (33 bp):
ATTTTTAATAATTTATTATTTAATATAAATATA
Found at i:87991 original size:18 final size:17
Alignment explanation
Indices: 87927--88063 Score: 72
Period size: 18 Copynumber: 7.9 Consensus size: 17
87917 TTATTAAATT
* *
87927 ATTTTTATTATAAATATA
1 ATTTTTAAT-TAATTATA
87945 ATTTTTAA-TAATT-TA
1 ATTTTTAATTAATTATA
87960 ATTTTTAATATAATTATA
1 ATTTTTAAT-TAATTATA
* *
87978 ATTTAGTAATTAATTATT
1 ATTT-TTAATTAATTATA
* *
87996 A-TTTAACATTAA-TA-C
1 ATTTTTA-ATTAATTATA
*
88011 ATTTTTAATTTATATT-TT
1 ATTTTTAA-TTA-ATTATA
88029 ATTATTTAATATAAATT-TA
1 ATT-TTTAAT-T-AATTATA
*
88048 ATTTTTAATTATTTAT
1 ATTTTTAATTAATTAT
88064 CCTTATATAC
Statistics
Matches: 94, Mismatches: 11, Indels: 29
0.70 0.08 0.22
Matches are distributed among these distances:
15 12 0.13
16 17 0.18
17 15 0.16
18 32 0.34
19 17 0.18
20 1 0.01
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (17 bp):
ATTTTTAATTAATTATA
Found at i:88038 original size:19 final size:18
Alignment explanation
Indices: 88011--88057 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
88001 ACATTAATAC
* *
88011 ATTTTTAATTTATATTTT
1 ATTTTTAATTTAAATTTA
*
88029 ATTATTTAATATAAATTTA
1 ATT-TTTAATTTAAATTTA
88048 ATTTTTAATT
1 ATTTTTAATT
88058 ATTTATCCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTTTAATTTAAATTTA
Found at i:90647 original size:16 final size:17
Alignment explanation
Indices: 90620--90653 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
90610 TAATTAGATA
90620 AATTTATATATATTTTT
1 AATTTATATATATTTTT
90637 AATTT-TATATATTTTT
1 AATTTATATATATTTTT
90653 A
1 A
90654 TTATTTTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
AATTTATATATATTTTT
Found at i:91543 original size:22 final size:22
Alignment explanation
Indices: 91518--91579 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 22
91508 TTGAATTATT
*
91518 ATTTAATAATAAAAATATTTAA
1 ATTTAATAATAAAAATATATAA
*
91540 ATTTAATTATAAAAATATATAA
1 ATTTAATAATAAAAATATATAA
*
91562 ATATTAATATATTAAAAT
1 AT-TTAATA-ATAAAAAT
91580 TTTTTAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 22 0.65
23 5 0.15
24 7 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
ATTTAATAATAAAAATATATAA
Found at i:93103 original size:2 final size:2
Alignment explanation
Indices: 93098--93127 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
93088 AGACACATAC
*
93098 AT AT AT AC 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
93128 TAGGTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:93107 original size:8 final size:8
Alignment explanation
Indices: 93094--93127 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
93084 AAAAAGACAC
93094 ATACATAT
1 ATACATAT
93102 ATACATAT
1 ATACATAT
*
93110 ATATATAT
1 ATACATAT
*
93118 ATATATAT
1 ATACATAT
93126 AT
1 AT
93128 TAGGTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (8 bp):
ATACATAT
Found at i:93195 original size:21 final size:20
Alignment explanation
Indices: 93132--93198 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
93122 ATATATTAGG
*
93132 TTTTAAAAATAAATTAAAAGT
1 TTTTAATAATAAA-TAAAAGT
** * *
93153 TTTTTTTAAGTAAGTAATAGT
1 TTTTAATAA-TAAATAAAAGT
93174 TTTTAATAATAAATAAGAAGT
1 TTTTAATAATAAATAA-AAGT
93195 TTTT
1 TTTT
93199 TTAAAAAAAT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
20 6 0.17
21 26 0.74
22 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.46
Consensus pattern (20 bp):
TTTTAATAATAAATAAAAGT
Found at i:94927 original size:26 final size:28
Alignment explanation
Indices: 94879--94930 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
94869 ATTTATATCG
*
94879 TATAAAAATTAAATATATAATATTATGA
1 TATAAAAATTAAATAAATAATATTATGA
*
94907 TATAAATATTAAA-AAAT-ATATTAT
1 TATAAAAATTAAATAAATAATATTAT
94931 ATTATTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 3 0.14
28 12 0.55
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (28 bp):
TATAAAAATTAAATAAATAATATTATGA
Found at i:95422 original size:22 final size:23
Alignment explanation
Indices: 95376--95422 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
95366 CCCCAAATTT
** *
95376 TATCCAAATTTTAGAAACTTCCA
1 TATCCAAAGCTTAGAAACTTACA
95399 TATCCAAAGCTTA-AAACTTACA
1 TATCCAAAGCTTAGAAACTTACA
95421 TA
1 TA
95423 AGTATTCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.32
Consensus pattern (23 bp):
TATCCAAAGCTTAGAAACTTACA
Found at i:96202 original size:20 final size:19
Alignment explanation
Indices: 96177--96215 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
96167 AAAAAAATAT
*
96177 ATTTTATAATATTTTAAAAA
1 ATTTTA-AATAATTTAAAAA
*
96197 ATTTTAATTAATTTAAAAA
1 ATTTTAAATAATTTAAAAA
96216 TAAAATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTTAAATAATTTAAAAA
Found at i:96633 original size:17 final size:17
Alignment explanation
Indices: 96611--96653 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
96601 AAATCTGTTG
96611 AATTTATATAATATTTA
1 AATTTATATAATATTTA
* *
96628 AATTTATTTATTATTTA
1 AATTTATATAATATTTA
96645 AATTTATAT
1 AATTTATAT
96654 TTGATTTAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
AATTTATATAATATTTA
Found at i:96660 original size:17 final size:17
Alignment explanation
Indices: 96623--96661 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
96613 TTTATATAAT
*
96623 ATTTAAATTTATTTATT
1 ATTTAAATTTATTTATG
96640 ATTTAAATTTATATT-TG
1 ATTTAAATTTAT-TTATG
96657 ATTTA
1 ATTTA
96662 GATAGTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
ATTTAAATTTATTTATG
Found at i:96947 original size:15 final size:14
Alignment explanation
Indices: 96925--96981 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 14
96915 TAAAATTTAT
96925 TCAAATATATAATA
1 TCAAATATATAATA
*
96939 TCTAAATATATAAAAA
1 TC-AAATATAT-AATA
*
96955 TCAAATTAGATAATA
1 TCAAA-TATATAATA
96970 TCAAATAT-TAAT
1 TCAAATATATAAT
96982 TTTTTTTACT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
13 4 0.11
14 4 0.11
15 19 0.53
16 9 0.25
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (14 bp):
TCAAATATATAATA
Found at i:98411 original size:17 final size:18
Alignment explanation
Indices: 98367--98411 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
98357 TTTAATTTAA
* *
98367 TTAATTTATATAATAATTT
1 TTAATTTA-AAAATAATAT
98386 TTAATTTAAAAATAATAT
1 TTAATTTAAAAATAATAT
98404 TT-ATTTAA
1 TTAATTTAA
98412 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.25
18 10 0.42
19 8 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAATTTAAAAATAATAT
Found at i:98418 original size:21 final size:21
Alignment explanation
Indices: 98361--98419 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
98351 AATTAATTTA
* *
98361 ATTTAATTAATTT-ATATAAT
1 ATTTATTTAATTTAAAATAAT
*
98381 AATT-TTTAATTTAAAAATAAT
1 ATTTATTTAATTT-AAAATAAT
98402 ATTTATTTAATTTAAAAT
1 ATTTATTTAATTTAAAAT
98420 TTTAATTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
19 7 0.22
20 3 0.09
21 14 0.44
22 8 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTTATTTAATTTAAAATAAT
Found at i:98427 original size:22 final size:22
Alignment explanation
Indices: 98376--98418 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
98366 ATTAATTTAT
*
98376 ATAATAATT-TTTAATTTAAAA
1 ATAATATTTATTTAATTTAAAA
98397 ATAATATTTATTTAATTTAAAA
1 ATAATATTTATTTAATTTAAAA
98419 TTTTAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATAATATTTATTTAATTTAAAA
Found at i:98578 original size:28 final size:27
Alignment explanation
Indices: 98547--98643 Score: 79
Period size: 29 Copynumber: 3.4 Consensus size: 27
98537 ATTTAAATAT
98547 AAAAATAAAAATTAATTAAAATATTATA
1 AAAAATAAAAATT-ATTAAAATATTATA
*
98575 AAAAATTAAAATTTATTATAAATA-TATGA
1 AAAAA-TAAAAATTATTA-AAATATTAT-A
* * *
98604 ATATATTAAAATTATATAAAATAATTATA
1 AAAAATAAAAATTAT-TAAAAT-ATTATA
* *
98633 TAAATTAAAAA
1 AAAAATAAAAA
98644 AATTTAATTT
Statistics
Matches: 53, Mismatches: 10, Indels: 11
0.72 0.14 0.15
Matches are distributed among these distances:
28 24 0.45
29 26 0.49
30 3 0.06
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (27 bp):
AAAAATAAAAATTATTAAAATATTATA
Found at i:98583 original size:18 final size:19
Alignment explanation
Indices: 98560--98596 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
98550 AATAAAAATT
98560 AATTAAAA-TATTATAAAA
1 AATTAAAATTATTATAAAA
98578 AATTAAAATTTATTATAAA
1 AATTAAAA-TTATTATAAA
98597 TATATGAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTAAAATTATTATAAAA
Found at i:98597 original size:29 final size:29
Alignment explanation
Indices: 98547--98642 Score: 85
Period size: 28 Copynumber: 3.4 Consensus size: 29
98537 ATTTAAATAT
* *
98547 AAAAATAAAAATTAATTA-AAATATTATA
1 AAAAATTAAAATTTATTATAAATATTATA
98575 AAAAATTAAAATTTATTATAAATA-TATGA
1 AAAAATTAAAATTTATTATAAATATTAT-A
* *
98604 ATATATTAAAA-TTA-TATAAAATAATTAT-
1 AAAAATTAAAATTTATTAT-AAAT-ATTATA
*
98632 ATAAATTAAAA
1 AAAAATTAAAA
98643 AAATTTAATT
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
27 3 0.05
28 36 0.62
29 16 0.28
30 3 0.05
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (29 bp):
AAAAATTAAAATTTATTATAAATATTATA
Found at i:98912 original size:22 final size:22
Alignment explanation
Indices: 98880--98923 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
98870 TATTATATTT
*
98880 AATTTAAAATTTAATATTTAAA
1 AATTTAAAATTTAATATATAAA
*
98902 AATTTATAATTTAATATATAAA
1 AATTTAAAATTTAATATATAAA
98924 TTTTATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AATTTAAAATTTAATATATAAA
Found at i:98913 original size:15 final size:15
Alignment explanation
Indices: 98879--98915 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
98869 ATATTATATT
98879 TAATTT-AAAATTTA
1 TAATTTAAAAATTTA
98893 -ATATTTAAAAATTTA
1 TA-ATTTAAAAATTTA
98908 TAATTTAA
1 TAATTTAA
98916 TATATAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
13 1 0.05
14 4 0.20
15 14 0.70
16 1 0.05
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TAATTTAAAAATTTA
Found at i:99129 original size:24 final size:24
Alignment explanation
Indices: 99097--99142 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
99087 GGATATAAAA
* *
99097 TTTAAGTATTAAATTATTAATTTT
1 TTTAAGTATAAAATTATAAATTTT
99121 TTTAAGTATAAAATTATAAATT
1 TTTAAGTATAAAATTATAAATT
99143 AAATTATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (24 bp):
TTTAAGTATAAAATTATAAATTTT
Found at i:99544 original size:20 final size:20
Alignment explanation
Indices: 99515--99573 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
99505 AACTATAACT
* *
99515 ATTATTATATATAATTTTTA
1 ATTATAATATATAATTTTAA
*
99535 TTTATAATAT-T-ATTTTAA
1 ATTATAATATATAATTTTAA
* *
99553 ATAATAATATAAAATTTTAA
1 ATTATAATATATAATTTTAA
99573 A
1 A
99574 CTTAAATAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
18 14 0.45
19 1 0.03
20 16 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTATAATATATAATTTTAA
Found at i:100060 original size:14 final size:14
Alignment explanation
Indices: 100031--100072 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
100021 TTTTTTATTT
*
100031 AAAT-TTAAT-TAT
1 AAATATTAATATAA
100043 AAATATTAATATAA
1 AAATATTAATATAA
*
100057 AAATAATAATATAA
1 AAATATTAATATAA
100071 AA
1 AA
100073 TTTTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 4 0.15
13 5 0.19
14 17 0.65
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATATTAATATAA
Found at i:100331 original size:18 final size:18
Alignment explanation
Indices: 100305--100353 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
100295 TTTATTACTC
100305 TTATAATTTTATAA-ATTT
1 TTATAATTTTA-AATATTT
*
100323 TTATTATTTTAAATATTT
1 TTATAATTTTAAATATTT
*
100341 TTTTAAATTTTAA
1 TTAT-AATTTTAA
100354 CTTATTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 2 0.08
18 17 0.65
19 7 0.27
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATAATTTTAAATATTT
Found at i:100351 original size:28 final size:28
Alignment explanation
Indices: 100311--100373 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
100301 ACTCTTATAA
* * *
100311 TTTTATAAATTTTTA-TTATTTTAAATAT
1 TTTTTTAAATTTTAACTTATTAT-AATAT
100339 TTTTTTAAATTTTAACTTATTATAATAT
1 TTTTTTAAATTTTAACTTATTATAATAT
100367 TTTTTTA
1 TTTTTTA
100374 TAATAACGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 25 0.81
29 6 0.19
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (28 bp):
TTTTTTAAATTTTAACTTATTATAATAT
Found at i:100635 original size:16 final size:16
Alignment explanation
Indices: 100592--100641 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
100582 AAAATAATCT
*
100592 ATAAAT-TAATTTAAA
1 ATAAATATAATTTATA
100607 ATAAATA-ATATTTATA
1 ATAAATATA-ATTTATA
100623 ATAAATATAATTTAATA
1 ATAAATATAATTT-ATA
100640 AT
1 AT
100642 TTTTATATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 7 0.23
16 17 0.57
17 6 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAATATAATTTATA
Found at i:101140 original size:25 final size:23
Alignment explanation
Indices: 101088--101152 Score: 64
Period size: 25 Copynumber: 2.8 Consensus size: 23
101078 AATATTTTTA
101088 TTTAAAT-TTAATTATAAAAATT
1 TTTAAATATTAATTATAAAAATT
*
101110 TATAAATATTAATTA-ACAAATTATT
1 TTTAAATATTAATTATA-AAA--ATT
*
101135 TTTAAATAATAATT-TAAA
1 TTTAAATATTAATTATAAA
101153 TCATCCGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
22 7 0.20
23 10 0.29
24 2 0.06
25 16 0.46
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
TTTAAATATTAATTATAAAAATT
Found at i:102499 original size:27 final size:27
Alignment explanation
Indices: 102454--102505 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
102444 ATACGAGAAT
* * *
102454 AATAAAAATATATTTATTTTTAATAAA
1 AATAAAAATATAATAATTTTAAATAAA
*
102481 AATAAAAATTTAATAATTTTAAATA
1 AATAAAAATATAATAATTTTAAATA
102506 TGATTATAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
AATAAAAATATAATAATTTTAAATAAA
Found at i:103814 original size:13 final size:13
Alignment explanation
Indices: 103796--103823 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
103786 CATTACTCAA
103796 TGTATCGATACAT
1 TGTATCGATACAT
103809 TGTATCGATACAT
1 TGTATCGATACAT
103822 TG
1 TG
103824 ATCTTTGTAT
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:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:103818 original size:33 final size:33
Alignment explanation
Indices: 103776--103841 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
103766 GCCAAGGAAA
103776 TGTATCGATACATT-ACTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
103809 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
103842 CTAGGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:104564 original size:73 final size:73
Alignment explanation
Indices: 104445--104587 Score: 286
Period size: 73 Copynumber: 2.0 Consensus size: 73
104435 TACCATCACT
104445 CAAATAACTCATTTTCAGCTTGTTTACAACCCCAAAGAGGTGTTAAACAAGCTGTTTGGTCACTT
1 CAAATAACTCATTTTCAGCTTGTTTACAACCCCAAAGAGGTGTTAAACAAGCTGTTTGGTCACTT
104510 CAAATCAG
66 CAAATCAG
104518 CAAATAACTCATTTTCAGCTTGTTTACAACCCCAAAGAGGTGTTAAACAAGCTGTTTGGTCACTT
1 CAAATAACTCATTTTCAGCTTGTTTACAACCCCAAAGAGGTGTTAAACAAGCTGTTTGGTCACTT
104583 CAAAT
66 CAAAT
104588 AGTGGCTGGT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.31
Consensus pattern (73 bp):
CAAATAACTCATTTTCAGCTTGTTTACAACCCCAAAGAGGTGTTAAACAAGCTGTTTGGTCACTT
CAAATCAG
Found at i:116235 original size:24 final size:24
Alignment explanation
Indices: 116208--116255 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
116198 TTGCCTTTGA
*
116208 CAGCTAACCTTGTTTTTTAAGTAT
1 CAGCTAACCTTGCTTTTTAAGTAT
*
116232 CAGCTAGCCTTGCTTTTTAAGTAT
1 CAGCTAACCTTGCTTTTTAAGTAT
116256 ATGTGATTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.44
Consensus pattern (24 bp):
CAGCTAACCTTGCTTTTTAAGTAT
Done.