Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 190 of 333
Found at i:62350501 original size:21 final size:21
Alignment explanation
Indices: 62350449--62350489 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
62350439 CCTATAACCT
62350449 TAAACCCTAAAATATATCCCC
1 TAAACCCTAAAATATATCCCC
*
62350470 TAAACCCTAAATTATATCCC
1 TAAACCCTAAAATATATCCC
62350490 TATAACCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.27
Consensus pattern (21 bp):
TAAACCCTAAAATATATCCCC
Found at i:62350553 original size:20 final size:21
Alignment explanation
Indices: 62350514--62350554 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
62350504 CTAAAGTATA
*
62350514 TATATCCCCTAAACCCTAAAC
1 TATATCCCCTAAACCATAAAC
*
62350535 TATATCCTCT-AACCATAAAC
1 TATATCCCCTAAACCATAAAC
62350555 CATAAAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.39, C:0.34, G:0.00, T:0.27
Consensus pattern (21 bp):
TATATCCCCTAAACCATAAAC
Found at i:62350726 original size:14 final size:14
Alignment explanation
Indices: 62350683--62350728 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
62350673 CTTAAACCAT
62350683 TAAACTATATCCCC
1 TAAACTATATCCCC
* *
62350697 T--ACTAAAGTACCC
1 TAAACTATA-TCCCC
62350710 TAAACTATATCCCC
1 TAAACTATATCCCC
62350724 TAAAC
1 TAAAC
62350729 CTTAAACCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
12 5 0.20
13 5 0.20
14 10 0.40
15 5 0.20
ACGTcount: A:0.39, C:0.33, G:0.02, T:0.26
Consensus pattern (14 bp):
TAAACTATATCCCC
Found at i:62350772 original size:22 final size:22
Alignment explanation
Indices: 62350746--62350801 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
62350736 CACAAAATAA
*
62350746 AAACCCCTAA-GCATTAACCTAT
1 AAACCCCTAACCCA-TAACCTAT
**
62350768 AAACCATTAACCCATAACCTAT
1 AAACCCCTAACCCATAACCTAT
*
62350790 AAACCCTTAACC
1 AAACCCCTAACC
62350802 ACTAGCCCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 27 0.93
23 2 0.07
ACGTcount: A:0.43, C:0.34, G:0.02, T:0.21
Consensus pattern (22 bp):
AAACCCCTAACCCATAACCTAT
Found at i:62350811 original size:29 final size:29
Alignment explanation
Indices: 62350769--62350824 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
62350759 TTAACCTATA
*
62350769 AACCATTAACCCATAA-CCTATAAACCCTT
1 AACCACTAACCCATAACCCT-TAAACCCTT
*
62350798 AACCACTAGCCCATAACCCTTAAACCC
1 AACCACTAACCCATAACCCTTAAACCC
62350825 AACCCTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.39, C:0.39, G:0.02, T:0.20
Consensus pattern (29 bp):
AACCACTAACCCATAACCCTTAAACCCTT
Found at i:62350813 original size:22 final size:22
Alignment explanation
Indices: 62350760--62350883 Score: 64
Period size: 22 Copynumber: 5.8 Consensus size: 22
62350750 CCCTAAGCAT
* *
62350760 TAACCTATAAACCATTAACCCA
1 TAACCCATAAACCCTTAACCCA
*
62350782 TAACCTATAAACCCTTAA-CCA
1 TAACCCATAAACCCTTAACCCA
*
62350803 CTAGCCCAT-AACCCTTAAACCC-
1 -TAACCCATAAACCCTT-AACCCA
* * * *
62350825 -AACCCTTAAA-CCATAAGCCG
1 TAACCCATAAACCCTTAACCCA
* * *
62350845 TAA-ACATAATCCCTAAACCCA
1 TAACCCATAAACCCTTAACCCA
*
62350866 TAAACCC-TAAACCTTTAA
1 T-AACCCATAAACCCTTAA
62350884 ATAGTAAATC
Statistics
Matches: 75, Mismatches: 18, Indels: 18
0.68 0.16 0.16
Matches are distributed among these distances:
19 4 0.05
20 12 0.16
21 21 0.28
22 35 0.47
23 3 0.04
ACGTcount: A:0.42, C:0.35, G:0.02, T:0.21
Consensus pattern (22 bp):
TAACCCATAAACCCTTAACCCA
Found at i:62350830 original size:13 final size:13
Alignment explanation
Indices: 62350812--62350836 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62350802 ACTAGCCCAT
62350812 AACCCTTAAACCC
1 AACCCTTAAACCC
62350825 AACCCTTAAACC
1 AACCCTTAAACC
62350837 ATAAGCCGTA
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:0.40, C:0.44, G:0.00, T:0.16
Consensus pattern (13 bp):
AACCCTTAAACCC
Found at i:62350884 original size:15 final size:15
Alignment explanation
Indices: 62350849--62350878 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
62350839 AAGCCGTAAA
*
62350849 CATAATCCCTAAACC
1 CATAAACCCTAAACC
62350864 CATAAACCCTAAACC
1 CATAAACCCTAAACC
62350879 TTTAAATAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (15 bp):
CATAAACCCTAAACC
Found at i:62351478 original size:40 final size:40
Alignment explanation
Indices: 62351434--62351676 Score: 355
Period size: 40 Copynumber: 6.0 Consensus size: 40
62351424 TGCTTAATCT
*
62351434 TTTAGCGGCG-TTT-TTAAAAAAGCGCCGCTAATGCTCGATC
1 TTTAGCGGCGCTTTCCT-AAAAA-CGCCGCTAATGCTCGATC
*
62351474 TTTAGCGGCGCTTTCCTAAAAACGGCGCTAATGCTCAGATC
1 TTTAGCGGCGCTTTCCTAAAAACGCCGCTAATGCTC-GATC
*
62351515 TTTAGCGGCGCTTTCCTAAAAATGCCGCTAATGCTCAGATC
1 TTTAGCGGCGCTTTCCTAAAAACGCCGCTAATGCTC-GATC
*
62351556 TTTAGCGGCGCTTTCCTAAAAACGCAGCTAATGCTCGATC
1 TTTAGCGGCGCTTTCCTAAAAACGCCGCTAATGCTCGATC
**
62351596 TTTAGCGGCGCTTTGTTAAAAACGCCGCTAATGCTCGATC
1 TTTAGCGGCGCTTTCCTAAAAACGCCGCTAATGCTCGATC
* **
62351636 TTTAGCAGCGCTTTGTTAAAAACGCCGCTAATGCTCGATC
1 TTTAGCGGCGCTTTCCTAAAAACGCCGCTAATGCTCGATC
62351676 T
1 T
62351677 ATTCGATTTT
Statistics
Matches: 190, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
40 104 0.55
41 85 0.45
42 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (40 bp):
TTTAGCGGCGCTTTCCTAAAAACGCCGCTAATGCTCGATC
Found at i:62351544 original size:81 final size:80
Alignment explanation
Indices: 62351434--62351676 Score: 348
Period size: 81 Copynumber: 3.0 Consensus size: 80
62351424 TGCTTAATCT
*
62351434 TTTAGCGGCG-TTT-TTAAAAAAGCGCCGCTAATGCTCGATCTTTAGCGGCGCTTTCCTAAAAAC
1 TTTAGCGGCGCTTTCCT-AAAAA-CGCCGCTAATGCTCGATCTTTAGCGGCGCTTTCCTAAAAAC
62351497 GGCGCTAATGCTCAGATC
64 GGCGCTAATGCTC-GATC
*
62351515 TTTAGCGGCGCTTTCCTAAAAATGCCGCTAATGCTCAGATCTTTAGCGGCGCTTTCCTAAAAAC-
1 TTTAGCGGCGCTTTCCTAAAAACGCCGCTAATGCTC-GATCTTTAGCGGCGCTTTCCTAAAAACG
62351579 GCAGCTAATGCTCGATC
65 GC-GCTAATGCTCGATC
** * ** *
62351596 TTTAGCGGCGCTTTGTTAAAAACGCCGCTAATGCTCGATCTTTAGCAGCGCTTTGTTAAAAACGC
1 TTTAGCGGCGCTTTCCTAAAAACGCCGCTAATGCTCGATCTTTAGCGGCGCTTTCCTAAAAACGG
62351661 CGCTAATGCTCGATC
66 CGCTAATGCTCGATC
62351676 T
1 T
62351677 ATTCGATTTT
Statistics
Matches: 148, Mismatches: 9, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
80 39 0.26
81 63 0.43
82 45 0.30
83 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (80 bp):
TTTAGCGGCGCTTTCCTAAAAACGCCGCTAATGCTCGATCTTTAGCGGCGCTTTCCTAAAAACGG
CGCTAATGCTCGATC
Found at i:62351956 original size:29 final size:29
Alignment explanation
Indices: 62351924--62351982 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
62351914 TTCTTGCATG
62351924 TTTA-TTTTCTATTTTTAGTTTAGTTTGCT
1 TTTAGTTTT-TATTTTTAGTTTAGTTTGCT
* *
62351953 TTTAGTTTTTTTTTTTTGTTTAGTTTGCT
1 TTTAGTTTTTATTTTTAGTTTAGTTTGCT
62351982 T
1 T
62351983 CAGGACAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.10, C:0.05, G:0.12, T:0.73
Consensus pattern (29 bp):
TTTAGTTTTTATTTTTAGTTTAGTTTGCT
Found at i:62363711 original size:31 final size:31
Alignment explanation
Indices: 62363652--62363731 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
62363642 ACACATATAT
*
62363652 ATATACTAAATAAAATAATAAAATAATAATAA
1 ATAT-CTAATTAAAATAATAAAATAATAATAA
* *
62363684 ATATCTTATTAAAAT-ATTAAATAAATAATAA
1 ATATCTAATTAAAATAATAAAAT-AATAATAA
*
62363715 TTATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
62363732 TATAAAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 10 0.24
31 27 0.66
32 4 0.10
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
ATATCTAATTAAAATAATAAAATAATAATAA
Found at i:62363717 original size:23 final size:23
Alignment explanation
Indices: 62363658--62363717 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
62363648 ATATATATAC
62363658 TAAAT-AA-AATAA-TAAAATAA
1 TAAATAAATAATAATTAAAATAA
* * *
62363678 T-AATAAATATCTTATTAAAATAT
1 TAAATAAATA-ATAATTAAAATAA
62363701 TAAATAAATAATAATTA
1 TAAATAAATAATAATTA
62363718 TCTAATTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.10
20 3 0.10
21 1 0.03
22 2 0.07
23 13 0.43
24 8 0.27
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
TAAATAAATAATAATTAAAATAA
Found at i:62370513 original size:16 final size:17
Alignment explanation
Indices: 62370492--62370524 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
62370482 CACATTGAAG
62370492 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
62370508 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
62370525 CTTCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:62372017 original size:15 final size:17
Alignment explanation
Indices: 62371991--62372024 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
62371981 TATTTAATTA
62371991 TTTATCATCTTT-TAAT
1 TTTATCATCTTTCTAAT
62372007 TTTATCA-CTTTCTAAT
1 TTTATCATCTTTCTAAT
62372023 TT
1 TT
62372025 AGTTCCTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATCATCTTTCTAAT
Found at i:62373726 original size:25 final size:24
Alignment explanation
Indices: 62373698--62373749 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
62373688 TGAATAACGA
* *
62373698 TAAGCTCATATGAGCTGAGTATCGG
1 TAAGCTCATAAGAGCTGA-AATCGG
62373723 TAAGCTCATAAGAGCTGAAATCGG
1 TAAGCTCATAAGAGCTGAAATCGG
62373747 TAA
1 TAA
62373750 CCCTAATGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (24 bp):
TAAGCTCATAAGAGCTGAAATCGG
Found at i:62376430 original size:2 final size:2
Alignment explanation
Indices: 62376423--62376467 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
62376413 TACTATTAGC
62376423 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
62376465 CT C
1 CT C
62376468 CTAGTTCAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:62376665 original size:19 final size:19
Alignment explanation
Indices: 62376636--62376675 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
62376626 AAAGTAGTGG
*
62376636 AAATTTATTTTTTA-GAAT
1 AAATTTATTTTCTAGGAAT
62376654 AAATTCTATTTTCTAGGAAT
1 AAATT-TATTTTCTAGGAAT
62376674 AA
1 AA
62376676 CAATTTTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 8 0.42
20 6 0.32
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (19 bp):
AAATTTATTTTCTAGGAAT
Found at i:62382716 original size:20 final size:20
Alignment explanation
Indices: 62382678--62382716 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
62382668 ACATGTATTC
* *
62382678 ATCAAATTTCAGAATTTTTT
1 ATCAAATTTCACAACTTTTT
*
62382698 ATCAAATTTTACAACTTTT
1 ATCAAATTTCACAACTTTT
62382717 CATTTTAGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.13, G:0.03, T:0.49
Consensus pattern (20 bp):
ATCAAATTTCACAACTTTTT
Found at i:62385369 original size:14 final size:15
Alignment explanation
Indices: 62385350--62385384 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
62385340 TTTAATTTTC
62385350 AAAATTTCAAAAA-A
1 AAAATTTCAAAAATA
*
62385364 AAAATTTTAAAAATA
1 AAAATTTCAAAAATA
62385379 AAAATT
1 AAAATT
62385385 GCATTTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATTTCAAAAATA
Found at i:62385414 original size:30 final size:30
Alignment explanation
Indices: 62385380--62385495 Score: 119
Period size: 30 Copynumber: 3.9 Consensus size: 30
62385370 TTAAAAATAA
*
62385380 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAAC-TTTCACT
* * **
62385410 AAATTTTATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCACT
* * *
62385440 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCACT
* *
62385470 AAATTTCATTTT-AACCCTAAATTTTC
1 AAATTTCATTTTGACCCCTAAACTTTC
62385496 TAAAATTACA
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
29 16 0.22
30 56 0.78
ACGTcount: A:0.30, C:0.22, G:0.03, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCACT
Found at i:62385854 original size:3 final size:3
Alignment explanation
Indices: 62385846--62385904 Score: 73
Period size: 3 Copynumber: 18.0 Consensus size: 3
62385836 GCTCGGTTTT
62385846 GAA GAA GAA GAA GAA GGAA GAA GAA GAA GAA GAAA GAAA GAGA GAA GAA
1 GAA GAA GAA GAA GAA -GAA GAA GAA GAA GAA G-AA G-AA GA-A GAA GAA
62385895 GAAA GAA GAA
1 G-AA GAA GAA
62385905 AAAAAAGAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
3 36 0.69
4 16 0.31
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:62385867 original size:13 final size:13
Alignment explanation
Indices: 62385846--62385913 Score: 79
Period size: 13 Copynumber: 5.2 Consensus size: 13
62385836 GCTCGGTTTT
62385846 GAAGAAGAAG-AA
1 GAAGAAGAAGAAA
62385858 GAAGGAAGAAG-AA
1 GAA-GAAGAAGAAA
62385871 GAAGAAGAAAGAAA
1 GAAGAAG-AAGAAA
62385885 GAGAGAAGAAGAAA
1 GA-AGAAGAAGAAA
*
62385899 GAAGAA-AAAAAA
1 GAAGAAGAAGAAA
62385911 GAA
1 GAA
62385914 AAAAAATTTA
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
12 15 0.29
13 19 0.37
14 12 0.24
15 5 0.10
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAGAAA
Found at i:62385895 original size:34 final size:33
Alignment explanation
Indices: 62385850--62385914 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
62385840 GGTTTTGAAG
* * *
62385850 AAGAAGAAGAAGGAAGAAGAAGAAGAAGAAAGA
1 AAGAAGAAGAAGAAAGAAGAAAAAAAAGAAAGA
62385883 AAGAGAGAAGAAGAAAGAAGAAAAAAAAGAAA
1 AAGA-AGAAGAAGAAAGAAGAAAAAAAAGAAA
62385915 AAAAATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (33 bp):
AAGAAGAAGAAGAAAGAAGAAAAAAAAGAAAGA
Found at i:62385914 original size:16 final size:16
Alignment explanation
Indices: 62385847--62385914 Score: 91
Period size: 16 Copynumber: 4.1 Consensus size: 16
62385837 CTCGGTTTTG
*
62385847 AAGAAGAAGAAGAAGG
1 AAGAAGAAGAAGAAGA
62385863 AAGAAGAAGAAGAAGA
1 AAGAAGAAGAAGAAGA
62385879 AAGAAAGAGAGAAGAAGA
1 AAG-AAGA-AGAAGAAGA
* *
62385897 AAGAAGAAAAAAAAGA
1 AAGAAGAAGAAGAAGA
62385913 AA
1 AA
62385915 AAAAATTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
16 27 0.57
17 8 0.17
18 12 0.26
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (16 bp):
AAGAAGAAGAAGAAGA
Found at i:62385983 original size:18 final size:18
Alignment explanation
Indices: 62385956--62385998 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
62385946 AACCGGGTAT
* *
62385956 AACCCGACCCGATCCGGC
1 AACCCAACCCGATCCAGC
62385974 AACCCAACCCGATCCAGC
1 AACCCAACCCGATCCAGC
62385992 AAGCCCA
1 AA-CCCA
62385999 TTAGCCAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.30, C:0.49, G:0.16, T:0.05
Consensus pattern (18 bp):
AACCCAACCCGATCCAGC
Found at i:62386215 original size:8 final size:8
Alignment explanation
Indices: 62386192--62386250 Score: 68
Period size: 8 Copynumber: 7.4 Consensus size: 8
62386182 AAAAAAAAGG
62386192 AAGAAAAA
1 AAGAAAAA
62386200 GAAG-AAAA
1 -AAGAAAAA
62386208 AAGAAAAA
1 AAGAAAAA
62386216 AAG-AAAA
1 AAGAAAAA
*
62386223 AAGGAAAA
1 AAGAAAAA
62386231 AAGAAAAA
1 AAGAAAAA
*
62386239 AGGAAGAAA
1 AAGAA-AAA
62386248 AAG
1 AAG
62386251 GGGGTTCAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
7 10 0.23
8 26 0.59
9 8 0.18
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:62386219 original size:15 final size:15
Alignment explanation
Indices: 62386192--62386250 Score: 82
Period size: 15 Copynumber: 3.7 Consensus size: 15
62386182 AAAAAAAAGG
62386192 AAGAAAAAGAAGAAAA
1 AAGAAAAA-AAGAAAA
62386208 AAGAAAAAAAGAAAA
1 AAGAAAAAAAGAAAA
*
62386223 AAGGAAAAAAGAAAA
1 AAGAAAAAAAGAAAA
62386238 AAGGAAGAAAAAG
1 AA-GAA-AAAAAG
62386251 GGGGTTCAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
15 23 0.59
16 10 0.26
17 6 0.15
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AAGAAAAAAAGAAAA
Found at i:62386841 original size:20 final size:22
Alignment explanation
Indices: 62386800--62386842 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
62386790 AATTTTGTGT
*
62386800 AAAAAAATCCAGTGTTTTCAAA
1 AAAAAAATCCAGTGTTTCCAAA
62386822 AAAAAAATCCA-T-TTTCCAAA
1 AAAAAAATCCAGTGTTTCCAAA
62386842 A
1 A
62386843 TTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 1 0.05
22 11 0.55
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAAAAATCCAGTGTTTCCAAA
Found at i:62386912 original size:18 final size:17
Alignment explanation
Indices: 62386838--62387000 Score: 159
Period size: 17 Copynumber: 9.4 Consensus size: 17
62386828 ATCCATTTTC
* *
62386838 CAAAATTTTTAGTGTCTT
1 CAAAAATTTTCGTGT-TT
*
62386856 CTAAAAATTTTTGTGTTT
1 C-AAAAATTTTCGTGTTT
62386874 CAAAAATTTTCGT-TTT
1 CAAAAATTTTCGTGTTT
*
62386890 CAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTT
62386907 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* *
62386925 CAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTT
** *
62386942 CAAAAATCCTCTTGTTTT
1 CAAAAATTTTCGTG-TTT
62386960 CAAAAA-TTTCGGTGTTT
1 CAAAAATTTTC-GTGTTT
**
62386977 TGAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
62386995 CAAAAA
1 CAAAAA
62387001 AAAATATCGT
Statistics
Matches: 119, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
16 15 0.13
17 51 0.43
18 41 0.34
19 12 0.10
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (17 bp):
CAAAAATTTTCGTGTTT
Found at i:62387000 original size:35 final size:34
Alignment explanation
Indices: 62386838--62387000 Score: 168
Period size: 35 Copynumber: 4.7 Consensus size: 34
62386828 ATCCATTTTC
* * * *
62386838 CAAAATTTTTAGTGTCTTCTAAAAATTTTTGTGTTT
1 CAAAAATTTTCGTGTTTTC-AAAAA-TTTCGTGTTT
62386874 CAAAAATTTTC--GTTTTCAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTT-CGTGTTT
* *
62386907 CAAAAATTTTCGTGTTTTCAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTTTCAAAA-ATTTCGTGTTT
** *
62386942 CAAAAATCCTCTTGTTTTCAAAAATTTCGGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTTC-GTGTTT
**
62386977 TGAAAATTTTCGTGTTTTCAAAAA
1 CAAAAATTTTCGTGTTTTCAAAAA
62387001 AAAATATCGT
Statistics
Matches: 106, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
32 3 0.03
33 22 0.21
34 9 0.08
35 60 0.57
36 12 0.11
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (34 bp):
CAAAAATTTTCGTGTTTTCAAAAATTTCGTGTTT
Found at i:62401182 original size:48 final size:48
Alignment explanation
Indices: 62401106--62401228 Score: 167
Period size: 48 Copynumber: 2.6 Consensus size: 48
62401096 CGGGGTGTTA
* * *
62401106 CAGATATGGTCTTACACTAGC-ACACATATCAATGCCGATGCCATGTCC
1 CAGACATGGTCTTACACTGGCTA-TCATATCAATGCCGATGCCATGTCC
* *
62401154 CATACATGGTCTTACACTGGCTATCATATCAATGCTGATGCCATGTCC
1 CAGACATGGTCTTACACTGGCTATCATATCAATGCCGATGCCATGTCC
* *
62401202 CAGACATGGTTTTACACTGGCTCTCAT
1 CAGACATGGTCTTACACTGGCTATCAT
62401229 TAATCGTGAT
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
48 65 0.98
49 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (48 bp):
CAGACATGGTCTTACACTGGCTATCATATCAATGCCGATGCCATGTCC
Found at i:62406479 original size:40 final size:40
Alignment explanation
Indices: 62406419--62406500 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
62406409 AAGTTTAAAG
*
62406419 TATGTCAAAATCACTCAATTTAGCTTAACATAAACCTACT
1 TATGCCAAAATCACTCAATTTAGCTTAACATAAACCTACT
* *
62406459 TATGCCAAAATCACTCAATTTAGTTTAACATAAAGCTACT
1 TATGCCAAAATCACTCAATTTAGCTTAACATAAACCTACT
62406499 TA
1 TA
62406501 AGACATCAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.33
Consensus pattern (40 bp):
TATGCCAAAATCACTCAATTTAGCTTAACATAAACCTACT
Found at i:62407750 original size:42 final size:41
Alignment explanation
Indices: 62407681--62407792 Score: 154
Period size: 42 Copynumber: 2.7 Consensus size: 41
62407671 GTGCAGTTTT
* *
62407681 CACACGG-TCAAGACATACGCCCGTGTCTTAGGCCGTGTAGCA
1 CACACGGCT-AAGACACACG-CCTTGTCTTAGGCCGTGTAGCA
*
62407723 CACACGGCTAAGACACACGCTCTTGTCTTAGGCCGTGTAGTA
1 CACACGGCTAAGACACACGC-CTTGTCTTAGGCCGTGTAGCA
62407765 CACACGGCTAAGACACACGCCTGTGTCT
1 CACACGGCTAAGACACACGCCT-TGTCT
62407793 CTGCTAGTGT
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
41 3 0.05
42 60 0.94
43 1 0.02
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (41 bp):
CACACGGCTAAGACACACGCCTTGTCTTAGGCCGTGTAGCA
Found at i:62410679 original size:49 final size:48
Alignment explanation
Indices: 62410615--62410920 Score: 235
Period size: 46 Copynumber: 6.5 Consensus size: 48
62410605 AATTCTATGT
*
62410615 CATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCCGATG
1 CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCCGATG
* * * * *
62410663 CCGTGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCG-GTGTCAATG
1 -CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG-GCCGATG
* * * * * *
62410712 CCATGTCCTAGACAGGTCTTACACTGA--CACACA-A-C-AAGCTGACG
1 -CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCCGATG
*
62410756 CCATGTCCCAGACAGGTCTTATACT-AGCTCGT-ATA-ACTCGAGGCCGATG
1 -CATGTCCCAGACAGGTCTTACACTGA-CTC-TCATATA-TCGAGGCCGATG
* * * * *
62410805 CATGTCCCAGACATGTCTTACACT-AGCTCTC--GTCTCAATGCCGATG
1 CATGTCCCAGACAGGTCTTACACTGA-CTCTCATATATCGAGGCCGATG
* * * *
62410851 CATGTCCCAGACATGTCCTACACTGGCTCTCATA-AT-GTGGCCGATG
1 CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCCGATG
*
62410897 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACAGGTCTTACACT
62410921 AGCACACATA
Statistics
Matches: 205, Mismatches: 38, Indels: 31
0.75 0.14 0.11
Matches are distributed among these distances:
43 1 0.00
44 26 0.13
45 1 0.00
46 73 0.36
47 5 0.02
48 29 0.14
49 70 0.34
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (48 bp):
CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCCGATG
Found at i:62411773 original size:20 final size:20
Alignment explanation
Indices: 62411736--62411773 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
62411726 AAACTTGTAT
*
62411736 ATCTATCAAAAGCATTCATA
1 ATCTATCAAAAACATTCATA
62411756 ATCTATCAAGAAAC-TTCA
1 ATCTATCAA-AAACATTCA
62411774 CAATACATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
ATCTATCAAAAACATTCATA
Found at i:62426587 original size:75 final size:75
Alignment explanation
Indices: 62426482--62426623 Score: 257
Period size: 75 Copynumber: 1.9 Consensus size: 75
62426472 ATGCTCTACT
*
62426482 TTTTATTTACAGGTGGTGATGACGACCAATGACGACTCAGACACCATTCACTTTCGATTAGACGG
1 TTTTATTTACAGGTGGTGATGACGAACAATGACGACTCAGACACCATTCACTTTCGATTAGACGG
62426547 TCGAAAGAAC
66 TCGAAAGAAC
* *
62426557 TTTTATTTACAGGTGGTGATGACGAACAATGATGACTCAGACACCATTCACTTTCGATTAGGCGG
1 TTTTATTTACAGGTGGTGATGACGAACAATGACGACTCAGACACCATTCACTTTCGATTAGACGG
62426622 TC
66 TC
62426624 TAGTTCTTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 64 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (75 bp):
TTTTATTTACAGGTGGTGATGACGAACAATGACGACTCAGACACCATTCACTTTCGATTAGACGG
TCGAAAGAAC
Found at i:62427492 original size:12 final size:11
Alignment explanation
Indices: 62427477--62427543 Score: 64
Period size: 11 Copynumber: 6.0 Consensus size: 11
62427467 ACTCCTCCTA
62427477 TTTTTTTA-TT
1 TTTTTTTATTT
*
62427487 TATTTTTATTT
1 TTTTTTTATTT
*
62427498 TTATTTTATTT
1 TTTTTTTATTT
*
62427509 TATTTTTATTT
1 TTTTTTTATTT
*
62427520 TTCTTTTGATTT
1 TT-TTTTTATTT
*
62427532 TTATTTTCATTT
1 TT-TTTTTATTT
62427544 CAATTTTATT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
10 7 0.15
11 21 0.46
12 18 0.39
ACGTcount: A:0.15, C:0.03, G:0.01, T:0.81
Consensus pattern (11 bp):
TTTTTTTATTT
Found at i:62427500 original size:16 final size:16
Alignment explanation
Indices: 62427479--62427563 Score: 86
Period size: 17 Copynumber: 5.2 Consensus size: 16
62427469 TCCTCCTATT
62427479 TTTTTA-TTTATTTTTA
1 TTTTTATTTTA-TTTTA
62427495 TTTTTATTTTATTTTA
1 TTTTTATTTTATTTTA
*
62427511 TTTTTATTTTTCTTTTGA
1 TTTTTA-TTTTATTTT-A
*
62427529 TTTTTATTTTCATTTCA
1 TTTTTATTTT-ATTTTA
*
62427546 ATTTTA--TTATTTTA
1 TTTTTATTTTATTTTA
62427560 TTTT
1 TTTT
62427564 GAAAGACATA
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
14 8 0.14
15 2 0.03
16 17 0.29
17 22 0.37
18 10 0.17
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.78
Consensus pattern (16 bp):
TTTTTATTTTATTTTA
Found at i:62427504 original size:5 final size:5
Alignment explanation
Indices: 62427480--62427563 Score: 57
Period size: 6 Copynumber: 15.8 Consensus size: 5
62427470 CCTCCTATTT
*
62427480 TTTTA -TTTA TTTTTA TTTTTA TTTTA TTTTA TTTTTA TTTTTC TTTTGA
1 TTTTA TTTTA -TTTTA -TTTTA TTTTA TTTTA -TTTTA -TTTTA TTTT-A
*
62427529 TTTTTA TTTTCA TTTCAA TTTTA --TTA TTTTA TTTT
1 -TTTTA TTTT-A TTT-TA TTTTA TTTTA TTTTA TTTT
62427564 GAAAGACATA
Statistics
Matches: 66, Mismatches: 4, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
3 3 0.05
4 4 0.06
5 26 0.39
6 29 0.44
7 4 0.06
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:62427533 original size:7 final size:6
Alignment explanation
Indices: 62427475--62427543 Score: 81
Period size: 6 Copynumber: 11.8 Consensus size: 6
62427465 TGACTCCTCC
62427475 TATTTT T-TTATT TATTTT TATTTT TA-TTT TA-TTT TATTTT TATTTT
1 TATTTT TATT-TT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
* * *
62427521 TCTTTT GATTTT TATTTT CATTT
1 TATTTT TATTTT TATTTT TATTT
62427544 CAATTTTATT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
5 12 0.22
6 41 0.75
7 2 0.04
ACGTcount: A:0.16, C:0.03, G:0.01, T:0.80
Consensus pattern (6 bp):
TATTTT
Found at i:62430948 original size:8 final size:7
Alignment explanation
Indices: 62430932--62430991 Score: 53
Period size: 6 Copynumber: 9.4 Consensus size: 7
62430922 TGCGTTGACC
62430932 CTTCTTT
1 CTTCTTT
62430939 CTTCCTTT
1 CTT-CTTT
62430947 CTTCTTT
1 CTTCTTT
62430954 C-TCTTT
1 CTTCTTT
62430960 -TT-TTT
1 CTTCTTT
62430965 CTT-TTT
1 CTTCTTT
*
62430971 TTTCTTT
1 CTTCTTT
62430978 -TT-TTT
1 CTTCTTT
62430983 -TTCTTT
1 CTTCTTT
62430989 CTT
1 CTT
62430992 TTCTATCTGT
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
5 8 0.17
6 18 0.39
7 13 0.28
8 7 0.15
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (7 bp):
CTTCTTT
Found at i:62430965 original size:11 final size:11
Alignment explanation
Indices: 62430951--62430995 Score: 53
Period size: 10 Copynumber: 4.5 Consensus size: 11
62430941 TCCTTTCTTC
62430951 TTTCTC-TTTT
1 TTTCTCTTTTT
62430961 TTT-TCTTTTT
1 TTTCTCTTTTT
62430971 TTTCT-TTTTT
1 TTTCTCTTTTT
*
62430981 TTT-TCTTTCT
1 TTTCTCTTTTT
62430991 TTTCT
1 TTTCT
62430996 ATCTGTTTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
9 3 0.10
10 25 0.83
11 2 0.07
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTCTCTTTTT
Found at i:62430967 original size:9 final size:9
Alignment explanation
Indices: 62430944--62430982 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
62430934 TCTTTCTTCC
*
62430944 TTTCTTCTT
1 TTTCTTTTT
*
62430953 TCTCTTTTT
1 TTTCTTTTT
62430962 TTTCTTTTT
1 TTTCTTTTT
62430971 TTTCTTTTT
1 TTTCTTTTT
62430980 TTT
1 TTT
62430983 TTCTTTCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:62430967 original size:18 final size:18
Alignment explanation
Indices: 62430944--62430990 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
62430934 TCTTTCTTCC
62430944 TTTCTTCTTTCTCTTTTT
1 TTTCTTCTTTCTCTTTTT
* *
62430962 TTTCTTTTTTTTCTTTTT
1 TTTCTTCTTTCTCTTTTT
62430980 TTT-TTCTTTCT
1 TTTCTTCTTTCT
62430991 TTTCTATCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTCTTCTTTCTCTTTTT
Found at i:62430980 original size:20 final size:20
Alignment explanation
Indices: 62430951--62430995 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
62430941 TCCTTTCTTC
*
62430951 TTTCTCTTTTTTTTCTTTTT
1 TTTCTCTTTTTTTTCTTTCT
*
62430971 TTTCTTTTTTTTTTCTTTCT
1 TTTCTCTTTTTTTTCTTTCT
62430991 TTTCT
1 TTTCT
62430996 ATCTGTTTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTCTCTTTTTTTTCTTTCT
Found at i:62437146 original size:17 final size:17
Alignment explanation
Indices: 62437124--62437157 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
62437114 CCACAATTAA
62437124 ATTATTAAATATAATTT
1 ATTATTAAATATAATTT
* *
62437141 ATTATTATATTTAATTT
1 ATTATTAAATATAATTT
62437158 CAATTAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTATTAAATATAATTT
Found at i:62438449 original size:16 final size:17
Alignment explanation
Indices: 62438421--62438459 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
62438411 TTTTAATAAA
62438421 AAATATTTAAAAATT-T
1 AAATATTTAAAAATTAT
62438437 AAAT-TTTATAAAATTAT
1 AAATATTTA-AAAATTAT
62438454 AAATAT
1 AAATAT
62438460 ATAGAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.20
16 10 0.50
17 5 0.25
18 1 0.05
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATATTTAAAAATTAT
Found at i:62438614 original size:18 final size:18
Alignment explanation
Indices: 62438573--62438616 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
62438563 CTAAAAGAAG
62438573 CATTTTATAATTTTTCTAT
1 CATTTT-TAATTTTTCTAT
* * *
62438592 AATTTTTATTTTTTTTAT
1 CATTTTTAATTTTTCTAT
62438610 CATTTTT
1 CATTTTT
62438617 TACCACAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (18 bp):
CATTTTTAATTTTTCTAT
Found at i:62438758 original size:17 final size:18
Alignment explanation
Indices: 62438718--62438789 Score: 65
Period size: 19 Copynumber: 3.9 Consensus size: 18
62438708 TTTTCGATGC
62438718 ATTTTATAATTTTTATAAA
1 ATTTTAT-ATTTTTATAAA
*
62438737 ATTTTATATTTTTA-AAT
1 ATTTTATATTTTTATAAA
* **
62438754 TTTTTATATTTCAATTAAA
1 ATTTTATATTTTTA-TAAA
* *
62438773 ATTTAATAATTTTATAA
1 ATTTTATATTTTTATAA
62438790 CTTTTATTGT
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
17 13 0.32
18 10 0.24
19 18 0.44
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTATATTTTTATAAA
Found at i:62443705 original size:26 final size:27
Alignment explanation
Indices: 62443676--62443743 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 27
62443666 GCTAAATGTG
*
62443676 TTGGTGAGCTGGTGTTCACCAGT-TTA
1 TTGGTGAGCTGGGGTTCACCAGTCTTA
* * *
62443702 TTGGCGAGTTGGGGTTCGCCAGTCTTA
1 TTGGTGAGCTGGGGTTCACCAGTCTTA
*
62443729 TT-GTGACCTGGGGTT
1 TTGGTGAGCTGGGGTT
62443744 TGCCAGTCAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
26 29 0.85
27 5 0.15
ACGTcount: A:0.12, C:0.16, G:0.35, T:0.37
Consensus pattern (27 bp):
TTGGTGAGCTGGGGTTCACCAGTCTTA
Found at i:62444436 original size:41 final size:41
Alignment explanation
Indices: 62444379--62444557 Score: 182
Period size: 41 Copynumber: 4.3 Consensus size: 41
62444369 TTACAAGCTA
62444379 TGTATCAGCAAAGCTCCCCTCGTAAGCTTATG-GATAAGTTG
1 TGTATCAGCAAAGCT-CCCTCGTAAGCTTATGTGATAAGTTG
* * * *
62444420 TGTATCAGCGAAGCTCCCCCATGAGCTTATGTGATAAGTTG
1 TGTATCAGCAAAGCTCCCTCGTAAGCTTATGTGATAAGTTG
* * * * *
62444461 TGTGATCAGCAAAGCTCCCTTGTGAGATTAT-AGATAAGCTG
1 TGT-ATCAGCAAAGCTCCCTCGTAAGCTTATGTGATAAGTTG
* * * * *
62444502 TGTATCAACGAAGCTCCCTACGTAAGCTTAAGTGACAAATTG
1 TGTATCAGCAAAGCTCCCT-CGTAAGCTTATGTGATAAGTTG
*
62444544 TGTATCAGTAAAGC
1 TGTATCAGCAAAGC
62444558 ACAAGCCAGT
Statistics
Matches: 110, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
40 27 0.25
41 44 0.40
42 39 0.35
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (41 bp):
TGTATCAGCAAAGCTCCCTCGTAAGCTTATGTGATAAGTTG
Found at i:62444551 original size:82 final size:82
Alignment explanation
Indices: 62444379--62444557 Score: 216
Period size: 82 Copynumber: 2.2 Consensus size: 82
62444369 TTACAAGCTA
* * * * * *
62444379 TGTATCAGCAAAGCTCCCCTCGTAAGCTTATGGATAAGTTGTGTATCAGCGAAGCTCCCCCATGA
1 TGTATCAGCAAAGCTCCCCTCGTAAGATTATAGATAAGCTGTGTATCAACGAAGCTCCCACATAA
* * *
62444444 GCTTATGTGATAAGTTG
66 GCTTAAGTGACAAATTG
* * *
62444461 TGTGATCAGCAAAGCT-CCCTTGTGAGATTATAGATAAGCTGTGTATCAACGAAGCTCCCTACGT
1 TGT-ATCAGCAAAGCTCCCCTCGTAAGATTATAGATAAGCTGTGTATCAACGAAGCTCCC-ACAT
62444525 AAGCTTAAGTGACAAATTG
64 AAGCTTAAGTGACAAATTG
*
62444544 TGTATCAGTAAAGC
1 TGTATCAGCAAAGC
62444558 ACAAGCCAGT
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
82 50 0.61
83 32 0.39
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (82 bp):
TGTATCAGCAAAGCTCCCCTCGTAAGATTATAGATAAGCTGTGTATCAACGAAGCTCCCACATAA
GCTTAAGTGACAAATTG
Found at i:62446885 original size:71 final size:71
Alignment explanation
Indices: 62446765--62446911 Score: 251
Period size: 71 Copynumber: 2.1 Consensus size: 71
62446755 GGAAATTTTG
* *
62446765 AAAA-TGTTAATAGGAAGTCATATTCATCAAATTGGATGTTGTAATGAAATTGAGACTGATAAAT
1 AAAATTGTTAATAGGAAGTCATATGCATCAAATTGGATGTTGTAATGAAATTGAGACTAATAAAT
**
62446829 TGAAAT
66 CAAAAT
62446835 AAAATTGTTAATAGGAAGTCATATGCATCAAATTGGATGTTGTAATGAAATTGAGACTAATAAAT
1 AAAATTGTTAATAGGAAGTCATATGCATCAAATTGGATGTTGTAATGAAATTGAGACTAATAAAT
62446900 CAAAAT
66 CAAAAT
62446906 AAAATT
1 AAAATT
62446912 ACTGCATAGA
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
70 4 0.06
71 68 0.94
ACGTcount: A:0.45, C:0.06, G:0.17, T:0.32
Consensus pattern (71 bp):
AAAATTGTTAATAGGAAGTCATATGCATCAAATTGGATGTTGTAATGAAATTGAGACTAATAAAT
CAAAAT
Found at i:62454749 original size:46 final size:46
Alignment explanation
Indices: 62454696--62454871 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
62454686 TATTTGGGCA
*
62454696 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * *
62454742 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* * * *
62454789 TCCGAGCTCATTGAGTTGAGTTCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
62454835 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
62454872 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.62
47 30 0.28
48 2 0.02
50 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:62454851 original size:93 final size:93
Alignment explanation
Indices: 62454692--62454864 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
62454682 AGGATATTTG
* * * * *
62454692 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTGAG
62454757 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
62454785 GGCATCCGAGCTCATTGAGTTGAGTTCGAGTTCACTTATGGATACGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTGAG
62454850 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
62454865 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:62455306 original size:15 final size:15
Alignment explanation
Indices: 62455286--62455317 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
62455276 CACACTCACA
62455286 CTATCCGTATACCAT
1 CTATCCGTATACCAT
62455301 CTATCCGTATACCAT
1 CTATCCGTATACCAT
62455316 CT
1 CT
62455318 TGGCATAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.34, G:0.06, T:0.34
Consensus pattern (15 bp):
CTATCCGTATACCAT
Found at i:62460287 original size:46 final size:45
Alignment explanation
Indices: 62460234--62460409 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
62460224 TATTTGGGCA
62460234 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGC
* * *
62460279 GTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GC
* * * *
62460326 ATCCGAGCTCGTTGAGTTGATTCCGAGTTCACTTATAGATGCGAAC
1 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGC
* *
62460372 TCCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 T-CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62460410 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 4 0.04
45 3 0.03
46 65 0.60
47 31 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGC
Found at i:62460389 original size:93 final size:93
Alignment explanation
Indices: 62460230--62460402 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
62460220 GGGATATTTG
* *
62460230 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGTCCGAACTCGTTGAG
62460295 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
62460323 GGCATCCGAGCTCGTTGAGTTGATTCCGAGTTCACTTATAGATGCGAAC-TCCCGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGT-CCGAACTCGTTGA
62460387 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
62460403 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:62460844 original size:15 final size:15
Alignment explanation
Indices: 62460824--62460855 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
62460814 CACACTCACA
62460824 CTATCCGTATACCAT
1 CTATCCGTATACCAT
62460839 CTATCCGTATACCAT
1 CTATCCGTATACCAT
62460854 CT
1 CT
62460856 TGGCATAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.34, G:0.06, T:0.34
Consensus pattern (15 bp):
CTATCCGTATACCAT
Found at i:62464274 original size:43 final size:42
Alignment explanation
Indices: 62464158--62464274 Score: 119
Period size: 43 Copynumber: 2.8 Consensus size: 42
62464148 GATTTGTGAC
* *
62464158 TTACGTGTAAGACCAAGTCTGGGACATTGGCATCGTATATGA
1 TTACGTGTAAGACCAAGTCTGGGACATTGGCACCGAATATGA
* * * * * *
62464200 TTTCGTGTAAAATCC-TGTCTGGGATAGTGGCACCGAAATTTGA
1 TTACGTGTAAGA-CCAAGTCTGGGACATTGGCACCG-AATATGA
* *
62464243 TTACATGTAAGACCACGTCTGGGACATTGGCA
1 TTACGTGTAAGACCAAGTCTGGGACATTGGCA
62464275 TTGTACAAGC
Statistics
Matches: 58, Mismatches: 14, Indels: 5
0.75 0.18 0.06
Matches are distributed among these distances:
42 28 0.48
43 30 0.52
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (42 bp):
TTACGTGTAAGACCAAGTCTGGGACATTGGCACCGAATATGA
Found at i:62470891 original size:21 final size:21
Alignment explanation
Indices: 62470867--62470909 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
62470857 AATACATGCC
62470867 ATGTAAGAGAATATTGTGAAA
1 ATGTAAGAGAATATTGTGAAA
62470888 ATGTAAGAGAATATTGTGAAA
1 ATGTAAGAGAATATTGTGAAA
62470909 A
1 A
62470910 CTAACTCCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.23, T:0.28
Consensus pattern (21 bp):
ATGTAAGAGAATATTGTGAAA
Found at i:62473031 original size:41 final size:40
Alignment explanation
Indices: 62472969--62473215 Score: 228
Period size: 41 Copynumber: 6.1 Consensus size: 40
62472959 AGAATATTGT
* *
62472969 TGAATTGCACATACATCCCTCTGTTTGTACTTTGGTACCCC
1 TGAATTGCACATACATGCC-CTGTTTGTACTTCGGTACCCC
* * *
62473010 TGAATTGCACCTACGTGCCTCTGTTTGTACTTCGGTACCCT
1 TGAATTGCACATACATGCC-CTGTTTGTACTTCGGTACCCC
* *
62473051 TGAATTG--CATACATGCCCTATTTGTACTTTGGTACCCC
1 TGAATTGCACATACATGCCCTGTTTGTACTTCGGTACCCC
* ** * ** *
62473089 TTAATAACTCATATGTGCCCTTGTTTGTACTTCGGTACCCT
1 TGAATTGCACATACATGCCC-TGTTTGTACTTCGGTACCCC
* * * *
62473130 TGAATTGTACGTACATGACCCTATTTGTACTTCAGTACCCC
1 TGAATTGCACATACATG-CCCTGTTTGTACTTCGGTACCCC
** * * *
62473171 TGAATTGCACATATGTGCCCCTGTTTGGACTTCGGTGCCCT
1 TGAATTGCACATACATG-CCCTGTTTGTACTTCGGTACCCC
62473212 TGAA
1 TGAA
62473216 AGCACTTGTG
Statistics
Matches: 163, Mismatches: 39, Indels: 8
0.78 0.19 0.04
Matches are distributed among these distances:
38 22 0.13
39 8 0.05
40 9 0.06
41 121 0.74
42 3 0.02
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.36
Consensus pattern (40 bp):
TGAATTGCACATACATGCCCTGTTTGTACTTCGGTACCCC
Found at i:62475180 original size:20 final size:20
Alignment explanation
Indices: 62475155--62475198 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
62475145 CCATAAGCTT
62475155 CCAAAATTTCTAACAAAATG
1 CCAAAATTTCTAACAAAATG
62475175 CCAAAATTTCTAACAAAATG
1 CCAAAATTTCTAACAAAATG
62475195 CCAA
1 CCAA
62475199 GTTCTCTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.50, C:0.23, G:0.05, T:0.23
Consensus pattern (20 bp):
CCAAAATTTCTAACAAAATG
Found at i:62475251 original size:19 final size:19
Alignment explanation
Indices: 62475155--62475260 Score: 63
Period size: 20 Copynumber: 5.5 Consensus size: 19
62475145 CCATAAGCTT
*
62475155 CCAAAATTTCTAACAAAATG
1 CCAAAATTTCTAAC-AAATA
*
62475175 CCAAAATTTCTAACAAAATG
1 CCAAAATTTCTAAC-AAATA
* ** *
62475195 CC-AAGTTCTCTGTGCAACT-
1 CCAAAATT-TCT-AACAAATA
* * *
62475214 CTAAAGTTTTTAACAAATA
1 CCAAAATTTCTAACAAATA
*
62475233 CCAAAATTTCTAACCAATA
1 CCAAAATTTCTAACAAATA
*
62475252 CCGAAATTT
1 CCAAAATTT
62475261 TCATGAGAAG
Statistics
Matches: 68, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
18 4 0.06
19 30 0.44
20 33 0.49
21 1 0.01
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (19 bp):
CCAAAATTTCTAACAAATA
Found at i:62476987 original size:20 final size:20
Alignment explanation
Indices: 62476958--62476996 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
62476948 CAGATATAAA
*
62476958 AATTTGTAACCAAATACCAT
1 AATTTCTAACCAAATACCAT
62476978 AATTTCTAACCAAATACCA
1 AATTTCTAACCAAATACCA
62476997 AAATCTCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.28
Consensus pattern (20 bp):
AATTTCTAACCAAATACCAT
Found at i:62477005 original size:20 final size:20
Alignment explanation
Indices: 62476964--62477005 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
62476954 TAAAAATTTG
* *
62476964 TAACCAAATACCATAATTTC
1 TAACCAAATACCAAAATCTC
62476984 TAACCAAATACCAAAATCTC
1 TAACCAAATACCAAAATCTC
62477004 TA
1 TA
62477006 TAACAACTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (20 bp):
TAACCAAATACCAAAATCTC
Found at i:62477343 original size:15 final size:15
Alignment explanation
Indices: 62477297--62477344 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
62477287 TGGTTAATTA
*
62477297 TAATTAATTTTTAAT
1 TAATTAAATTTTAAT
* * *
62477312 TAAATAAATTATGAT
1 TAATTAAATTTTAAT
*
62477327 TAATTAAGTTTTAAT
1 TAATTAAATTTTAAT
62477342 TAA
1 TAA
62477345 AAGTATATAA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (15 bp):
TAATTAAATTTTAAT
Found at i:62479519 original size:24 final size:24
Alignment explanation
Indices: 62479492--62479548 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
62479482 GAAGCTCCGG
* *
62479492 AGAGCCATTAACGGGAATCT-AATA
1 AGAGCCATTAACGAGAAGCTCAA-A
*
62479516 AGAGCCAGTTATCGAGAAGCTCAAA
1 AGAGCCA-TTAACGAGAAGCTCAAA
62479541 AGAGCCAT
1 AGAGCCAT
62479549 AAATGGGGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 8 0.29
25 18 0.64
26 2 0.07
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.18
Consensus pattern (24 bp):
AGAGCCATTAACGAGAAGCTCAAA
Found at i:62479927 original size:21 final size:21
Alignment explanation
Indices: 62479894--62479939 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
62479884 TATACCAATG
*
62479894 AATTTGACATCAATTTAATAC
1 AATTTGACATCAATTCAATAC
*
62479915 AATTT-ACATTCAATTCAATCC
1 AATTTGACA-TCAATTCAATAC
62479936 AATT
1 AATT
62479940 CATATTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTGACATCAATTCAATAC
Found at i:62481418 original size:30 final size:30
Alignment explanation
Indices: 62481384--62481455 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
62481374 GTAATCTCGA
* *
62481384 TATAATGCCAGCTTGTGTGAGCAAATCTAT
1 TATAATGTCAGCTTGTGTGAACAAATCTAT
* * * *
62481414 TATAATGTCAACTTTTGTGAACAATTTTAT
1 TATAATGTCAGCTTGTGTGAACAAATCTAT
62481444 TATAATGTCAGC
1 TATAATGTCAGC
62481456 ATTCTATTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (30 bp):
TATAATGTCAGCTTGTGTGAACAAATCTAT
Found at i:62481518 original size:79 final size:79
Alignment explanation
Indices: 62481384--62481534 Score: 239
Period size: 79 Copynumber: 1.9 Consensus size: 79
62481374 GTAATCTCGA
* * * *
62481384 TATAATGCCAGCTTGTGTGAGCAAATCTATTATAATGTCAACTTTTGTGAACAATTTTATTATAA
1 TATAATGCCAGCTTGTGTAAGCAAATCAATTATAATGTCAACTTGTGTGAACAATTCTATTATAA
62481449 TGTCAGCATTCTAT
66 TGTCAGCATTCTAT
* * *
62481463 TATAATGTCAGCTTGTGTAAGCAAATCAATTATAATGTTAACTTGTGTGAGCAATTCTATTATAA
1 TATAATGCCAGCTTGTGTAAGCAAATCAATTATAATGTCAACTTGTGTGAACAATTCTATTATAA
62481528 TGTCAGC
66 TGTCAGC
62481535 TTGTGTGAGA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 65 1.00
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.39
Consensus pattern (79 bp):
TATAATGCCAGCTTGTGTAAGCAAATCAATTATAATGTCAACTTGTGTGAACAATTCTATTATAA
TGTCAGCATTCTAT
Found at i:62481541 original size:30 final size:30
Alignment explanation
Indices: 62481456--62481576 Score: 138
Period size: 30 Copynumber: 4.1 Consensus size: 30
62481446 TAATGTCAGC
*
62481456 ATTCTATTATAATGTCAGCTTGTGTAAGCA
1 ATTCTATTATAATGTCAGCTTGTGTGAGCA
* * * *
62481486 AATCAATTATAATGTTAACTTGTGTGAGCA
1 ATTCTATTATAATGTCAGCTTGTGTGAGCA
62481516 ATTCTATTATAATGTCAGCTTGTGTGAG-A
1 ATTCTATTATAATGTCAGCTTGTGTGAGCA
* * * *
62481545 A-CCTTATCATAAAGTTAGCTTGTGTGAGCA
1 ATTC-TATTATAATGTCAGCTTGTGTGAGCA
62481575 AT
1 AT
62481577 ATAATCACAC
Statistics
Matches: 75, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
28 1 0.01
29 23 0.31
30 51 0.68
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.38
Consensus pattern (30 bp):
ATTCTATTATAATGTCAGCTTGTGTGAGCA
Found at i:62484427 original size:16 final size:16
Alignment explanation
Indices: 62484406--62484438 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
62484396 GTGAATACGC
62484406 AAAAGCTGAAAAGTCG
1 AAAAGCTGAAAAGTCG
*
62484422 AAAAGCTGAAATGTCG
1 AAAAGCTGAAAAGTCG
62484438 A
1 A
62484439 CATTTAAGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.24, T:0.15
Consensus pattern (16 bp):
AAAAGCTGAAAAGTCG
Found at i:62486089 original size:19 final size:19
Alignment explanation
Indices: 62486061--62486128 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 19
62486051 ACATATTCCA
62486061 TTAGAAATTTAGGTATTCG
1 TTAGAAATTTAGGTATTCG
* * *
62486080 TTAGAGATTTTGGTATTCA
1 TTAGAAATTTAGGTATTCG
62486099 TTAAGAAATTTTA-GTATTCG
1 TT-AGAAA-TTTAGGTATTCG
62486119 TTAGGAAATT
1 TTA-GAAATT
62486129 AAAAAATATA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
19 21 0.52
20 16 0.40
21 3 0.08
ACGTcount: A:0.32, C:0.04, G:0.19, T:0.44
Consensus pattern (19 bp):
TTAGAAATTTAGGTATTCG
Found at i:62486115 original size:20 final size:19
Alignment explanation
Indices: 62486054--62486128 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 19
62486044 ACATCTAACA
62486054 TATTCCATTAGAAA-TTTAGG
1 TATT-CATTAGAAATTTTA-G
* * *
62486074 TATTCGTTAGAGATTTTGG
1 TATTCATTAGAAATTTTAG
62486093 TATTCATTAAGAAATTTTAG
1 TATTCATT-AGAAATTTTAG
*
62486113 TATTCGTTAGGAAATT
1 TATTCATTA-GAAATT
62486129 AAAAAATATA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 16 0.36
20 29 0.64
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.44
Consensus pattern (19 bp):
TATTCATTAGAAATTTTAG
Found at i:62487637 original size:32 final size:32
Alignment explanation
Indices: 62487572--62487638 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
62487562 TATCTGTTTT
* *
62487572 TATGAATTTACGTGTATATATATATCAATTTG
1 TATGAATTTACGTATATATATATATCAAATTG
* * * *
62487604 TATGTATTTATGTATATATATATTTTAAATTG
1 TATGAATTTACGTATATATATATATCAAATTG
62487636 TAT
1 TAT
62487639 AGATTTTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.52
Consensus pattern (32 bp):
TATGAATTTACGTATATATATATATCAAATTG
Found at i:62489482 original size:21 final size:21
Alignment explanation
Indices: 62489458--62489498 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
62489448 TCAAATTTGG
62489458 TTCTAAAATCATTTTATTTCA
1 TTCTAAAATCATTTTATTTCA
62489479 TTCTAAAATCATTTTATTTC
1 TTCTAAAATCATTTTATTTC
62489499 TTCGCTCTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.54
Consensus pattern (21 bp):
TTCTAAAATCATTTTATTTCA
Found at i:62491050 original size:18 final size:18
Alignment explanation
Indices: 62491027--62491063 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
62491017 TGTGTCTCAG
62491027 ACTAAATGTATGAGGGCT
1 ACTAAATGTATGAGGGCT
62491045 ACTAAATGTATGAGGGCT
1 ACTAAATGTATGAGGGCT
62491063 A
1 A
62491064 AGATTAGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.27
Consensus pattern (18 bp):
ACTAAATGTATGAGGGCT
Found at i:62499216 original size:21 final size:22
Alignment explanation
Indices: 62499178--62499220 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
62499168 AAAAACTAAA
*
62499178 AAAAAGAGAGGGAAGAAAAATT
1 AAAAAGAGAGAGAAGAAAAATT
*
62499200 AAAAAGAG-GAGATGAAAAATT
1 AAAAAGAGAGAGAAGAAAAATT
62499221 TTTTCAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.63, C:0.00, G:0.26, T:0.12
Consensus pattern (22 bp):
AAAAAGAGAGAGAAGAAAAATT
Found at i:62500252 original size:13 final size:13
Alignment explanation
Indices: 62500202--62500253 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
62500192 TAAAATTATG
62500202 TAGTGATAATATT
1 TAGTGATAATATT
*
62500215 TTGTGATAATATT
1 TAGTGATAATATT
*
62500228 TA--GA-ATTATT
1 TAGTGATAATATT
62500238 TAGTGATAATATT
1 TAGTGATAATATT
62500251 TAG
1 TAG
62500254 GAAAAATCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
10 7 0.22
11 2 0.06
12 2 0.06
13 21 0.66
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TAGTGATAATATT
Found at i:62515538 original size:47 final size:47
Alignment explanation
Indices: 62515472--62515828 Score: 577
Period size: 47 Copynumber: 7.8 Consensus size: 47
62515462 GAAATGATAG
** * *
62515472 TAAGGCCTAATGGGAGATGTGATGAACGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
62515519 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
* *
62515566 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
62515613 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
* *
62515660 TAAGGCCTAATGGCCGA--TG-TG-A--TG-AA-TGTATATAGGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
62515699 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
62515746 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
*
62515793 TAAGGCCTAATGGCCGATGTGATGAATCTGAAAGTG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
62515829 CCGATGTGAT
Statistics
Matches: 289, Mismatches: 13, Indels: 16
0.91 0.04 0.05
Matches are distributed among these distances:
39 28 0.10
40 2 0.01
41 4 0.01
42 2 0.01
43 2 0.01
44 2 0.01
45 4 0.01
46 2 0.01
47 243 0.84
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
Found at i:62515763 original size:133 final size:138
Alignment explanation
Indices: 62515472--62515828 Score: 537
Period size: 133 Copynumber: 2.6 Consensus size: 138
62515462 GAAATGATAG
** *
62515472 TAAGGCCTAATGGGAGATGTGATGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA-
62515537 GTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
65 GTGATGAA-GTGAAAGTGTATATA-GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
62515602 TATATATGAGA
128 TATATATGTGA
*
62515613 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGA-
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAG
*
62515677 TG-TG-A-TG-AA-TGTATATAGGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
66 TGATGAAGTGAAAGTGTATATA-GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
62515737 TATACGTGA
130 TATATGTGA
*
62515746 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA-
*
62515811 GTGATGAATCTGAAAGTG
65 GTGATGAA-GTGAAAGTG
62515829 CCGATGTGAT
Statistics
Matches: 200, Mismatches: 8, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
133 120 0.60
134 2 0.01
135 4 0.02
136 2 0.01
137 2 0.01
138 2 0.01
139 4 0.02
140 2 0.01
141 62 0.31
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.27
Consensus pattern (138 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAG
TGATGAAGTGAAAGTGTATATAGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTGA
Found at i:62515832 original size:23 final size:23
Alignment explanation
Indices: 62515805--62515850 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
62515795 AGGCCTAATG
62515805 GCCGATGTGATGAATCTGAAAGT
1 GCCGATGTGATGAATCTGAAAGT
*
62515828 GCCGATGTGATGAATGTGAAAGT
1 GCCGATGTGATGAATCTGAAAGT
62515851 ATATATATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.11, G:0.33, T:0.26
Consensus pattern (23 bp):
GCCGATGTGATGAATCTGAAAGT
Found at i:62515841 original size:70 final size:70
Alignment explanation
Indices: 62515758--62515897 Score: 235
Period size: 70 Copynumber: 2.0 Consensus size: 70
62515748 AGGCCTAATG
* *
62515758 GCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATCTG
1 GCCGATGTGATGAATGTGAAAGTATATATACGTGATAAGGCCTAAAGGCCGATGTGATGAATCTG
62515823 AAAGT
66 AAAGT
* * *
62515828 GCCGATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCTAAAGGCCGATGTGATGAATGTG
1 GCCGATGTGATGAATGTGAAAGTATATATACGTGATAAGGCCTAAAGGCCGATGTGATGAATCTG
62515893 AAAGT
66 AAAGT
62515898 ATATATATGT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (70 bp):
GCCGATGTGATGAATGTGAAAGTATATATACGTGATAAGGCCTAAAGGCCGATGTGATGAATCTG
AAAGT
Found at i:62515881 original size:47 final size:47
Alignment explanation
Indices: 62515828--62516101 Score: 431
Period size: 47 Copynumber: 5.8 Consensus size: 47
62515818 ATCTGAAAGT
*
62515828 GCCGATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCTAAAG
1 GCCGATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCTAATG
62515875 GCCGATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCTAATG
1 GCCGATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCTAATG
62515922 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATG
1 GCCGATGTGATGAATGTGAAA--GTATATATATGTGATAGGGCCTAATG
* *
62515971 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 GCCGATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCTAATG
* * *
62516018 GCCGATGTGATGAATGTGAAAGTATATATATGTGACAGGGCCGAGTG
1 GCCGATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCTAATG
* * * * *
62516065 GCCAACGTGATGGATGTGAAAGTGTATAAATGTGATA
1 GCCGATGTGATGAATGTGAAAGTATATATATGTGATA
62516102 AGTCCCGAAG
Statistics
Matches: 211, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
47 164 0.78
49 47 0.22
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
GCCGATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCTAATG
Found at i:62515917 original size:117 final size:117
Alignment explanation
Indices: 62515711--62515945 Score: 398
Period size: 117 Copynumber: 2.0 Consensus size: 117
62515701 AGGCCTAATG
* *
62515711 GCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 GCCGATGTGATGAATGTGAAAGTATATATACGTGATAAGGCCTAAAGGCCGATGTGATGAATGTG
*
62515776 AAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATCTGAAAGT
66 AAAGTATATATACGTGATAAGGCCTAATGGCCGATGTGATGAATCTGAAAGT
* *
62515828 GCCGATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCTAAAGGCCGATGTGATGAATGTG
1 GCCGATGTGATGAATGTGAAAGTATATATACGTGATAAGGCCTAAAGGCCGATGTGATGAATGTG
* * *
62515893 AAAGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGT
66 AAAGTATATATACGTGATAAGGCCTAATGGCCGATGTGATGAATCTGAAAGT
62515945 G
1 G
62515946 TATATATATG
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
117 110 1.00
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.28
Consensus pattern (117 bp):
GCCGATGTGATGAATGTGAAAGTATATATACGTGATAAGGCCTAAAGGCCGATGTGATGAATGTG
AAAGTATATATACGTGATAAGGCCTAATGGCCGATGTGATGAATCTGAAAGT
Found at i:62515975 original size:96 final size:94
Alignment explanation
Indices: 62515828--62516103 Score: 444
Period size: 96 Copynumber: 2.9 Consensus size: 94
62515818 ATCTGAAAGT
*
62515828 GCCGATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCTAAAGGCCGATGTGATGAATGTG
1 GCCGATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTG
* *
62515893 AAAGTATATATATGTGATAGGGCCTAATG
66 AAAGTGTATATATGTGATAAGGCCTAATG
62515922 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATG
1 GCCGATGTGATGAATGTGAAA--GTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATG
62515987 TGAAAGTGTATATATGTGATAAGGCCTAATG
64 TGAAAGTGTATATATGTGATAAGGCCTAATG
* * * * * *
62516018 GCCGATGTGATGAATGTGAAAGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTG
1 GCCGATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTG
*
62516083 AAAGTGTATAAATGTGATAAG
66 AAAGTGTATATATGTGATAAG
62516104 TCCCGAAGGG
Statistics
Matches: 170, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
94 79 0.46
96 91 0.54
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (94 bp):
GCCGATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTG
AAAGTGTATATATGTGATAAGGCCTAATG
Found at i:62516010 original size:213 final size:203
Alignment explanation
Indices: 62515625--62516040 Score: 643
Period size: 213 Copynumber: 2.0 Consensus size: 203
62515615 AGGCCTAATG
* *
62515625 GCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTA
1 GCCGATGTGATGAATGTGAAAGTATATATACGTGATAAGGCCTAAAGGCCGATGTGATGAATGTA
62515690 TATAGGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTA
66 TATAGGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTA
62515755 ATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAAT
131 ATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAAT
62515820 CTGAAAGT
196 CTGAAAGT
* *
62515828 GCCGATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCTAAAGGCCGATGTGATGAATGTG
1 GCCGATGTGATGAATGTGAAAGTATATATACGTGATAAGGCCTAAAGGCCGATGTGATGAA--T-
* * * *
62515893 AAAGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
63 ---G--TATATAGGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTG
* *
62515958 ATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
121 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGA
*
62516023 TGTGATGAATGTGAAAGT
186 TGTGATGAATCTGAAAGT
62516041 ATATATATGT
Statistics
Matches: 192, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
203 57 0.30
205 1 0.01
209 1 0.01
211 44 0.23
213 89 0.46
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (203 bp):
GCCGATGTGATGAATGTGAAAGTATATATACGTGATAAGGCCTAAAGGCCGATGTGATGAATGTA
TATAGGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTA
ATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAAT
CTGAAAGT
Found at i:62516278 original size:37 final size:37
Alignment explanation
Indices: 62516222--62516300 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
62516212 CCGAGCTCTA
* * *
62516222 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
62516259 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
62516296 AAGAC
1 AAGAC
62516301 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:62518093 original size:43 final size:43
Alignment explanation
Indices: 62518045--62518147 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
62518035 TTGGTTTTCA
*
62518045 GCACTAAGTCTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
62518088 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
62518131 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
62518148 TTGAAATGCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:62518164 original size:29 final size:29
Alignment explanation
Indices: 62518129--62518202 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
62518119 GTTGTGAGAT
* *
62518129 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
62518158 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
62518187 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
62518203 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:62518612 original size:39 final size:40
Alignment explanation
Indices: 62518511--62518654 Score: 154
Period size: 40 Copynumber: 3.6 Consensus size: 40
62518501 TCGAATGATG
* *
62518511 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
62518550 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
62518591 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
62518630 TCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAG-GCATT
62518655 CATGCTAGTG
Statistics
Matches: 90, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
39 35 0.39
40 37 0.41
41 17 0.19
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:62518673 original size:40 final size:40
Alignment explanation
Indices: 62518629--62518785 Score: 233
Period size: 40 Copynumber: 3.9 Consensus size: 40
62518619 GAGTTACTAA
62518629 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
62518669 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * * * *
62518709 ATTCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
62518749 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
62518786 CGTGTATTCG
Statistics
Matches: 105, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:62518977 original size:25 final size:25
Alignment explanation
Indices: 62518948--62518999 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
62518938 TGTGTATTAA
62518948 TGAATGAATAAGA-GCACTATGTATG
1 TGAAT-AATAAGAGGCACTATGTATG
* * *
62518973 TGAATAATTAGAGGCACTGTGTGTG
1 TGAATAATAAGAGGCACTATGTATG
62518998 TG
1 TG
62519000 CGAATTCCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.31
Consensus pattern (25 bp):
TGAATAATAAGAGGCACTATGTATG
Found at i:62522245 original size:47 final size:47
Alignment explanation
Indices: 62522179--62522750 Score: 901
Period size: 47 Copynumber: 12.1 Consensus size: 47
62522169 GAAATGATAG
** *
62522179 TAAGGCCTAATGGGAGATGTGATGAACGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
62522226 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
62522273 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
62522320 TAAGGCCTAATGGCCGTTGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
62522367 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
62522414 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
62522463 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
62522510 TAGGGCCTAAAGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
62522557 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
62522606 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
62522653 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
62522700 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
62522747 TAAG
1 TAAG
62522751 TCCCGAAGGG
Statistics
Matches: 492, Mismatches: 29, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
47 401 0.82
49 91 0.18
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:62522550 original size:143 final size:143
Alignment explanation
Indices: 62522182--62522748 Score: 917
Period size: 143 Copynumber: 4.0 Consensus size: 143
62522172 ATGATAGTAA
** *
62522182 GGCCTAATGGGAGATGTGATGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
62522247 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
66 ATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
62522310 ATATACGTGATAA
131 ATATATGTGATAG
* *
62522323 GGCCTAATGGCCGTTGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
62522388 ATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66 ATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
62522453 ATATATGTGATAG
131 ATATATGTGATAG
* * *
62522466 GGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCTAAAGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
62522531 ATGAATGTGAAAGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66 ATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
62522596 ATATATGTGATAG
131 ATATATGTGATAG
62522609 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * * * * * *
62522674 ATGAATGTGAAAGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
66 ATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
62522739 A-A-ATGTGATA
131 ATATATGTGATA
62522749 AGTCCCGAAG
Statistics
Matches: 399, Mismatches: 25, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
141 129 0.32
142 1 0.00
143 269 0.67
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (143 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATATGTGATAG
Found at i:62522925 original size:37 final size:37
Alignment explanation
Indices: 62522869--62522947 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
62522859 CCGAGCTCTA
* * *
62522869 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
62522906 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
62522943 AAGAC
1 AAGAC
62522948 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:62527166 original size:14 final size:14
Alignment explanation
Indices: 62527149--62527181 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
62527139 ATGTTTTAAA
62527149 GTTAATGATCAAAC
1 GTTAATGATCAAAC
*
62527163 GTTAATGATCAAAG
1 GTTAATGATCAAAC
62527177 GTTAA
1 GTTAA
62527182 AACCCTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.30
Consensus pattern (14 bp):
GTTAATGATCAAAC
Found at i:62528880 original size:23 final size:23
Alignment explanation
Indices: 62528854--62528898 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
62528844 GTAGTGATAA
*
62528854 TATTTAATGATGATATTAAGAAT
1 TATTTAATGATAATATTAAGAAT
* *
62528877 TATTTAGTGATAATATTTAGAA
1 TATTTAATGATAATATTAAGAA
62528899 AAAATCTAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.44
Consensus pattern (23 bp):
TATTTAATGATAATATTAAGAAT
Found at i:62529642 original size:50 final size:49
Alignment explanation
Indices: 62529588--62529689 Score: 170
Period size: 50 Copynumber: 2.1 Consensus size: 49
62529578 ACCAGGATTG
*
62529588 ACTACATAA-TGAAAAGTTGGCGGTCAGGACGTTCTTGGTCGCTATAACCA
1 ACTACATAAGT-AAAAGTTGACGGTCAGGACGTTCTTGG-CGCTATAACCA
62529638 ACTACATAAGTAAAAGTTGACGGTCAGGACGTTCTTGGCGCTATAACCA
1 ACTACATAAGTAAAAGTTGACGGTCAGGACGTTCTTGGCGCTATAACCA
62529687 ACT
1 ACT
62529690 TATTGCTTTG
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
49 14 0.28
50 35 0.70
51 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (49 bp):
ACTACATAAGTAAAAGTTGACGGTCAGGACGTTCTTGGCGCTATAACCA
Found at i:62532142 original size:123 final size:123
Alignment explanation
Indices: 62531921--62532162 Score: 301
Period size: 123 Copynumber: 2.0 Consensus size: 123
62531911 TTTGTGTGCT
* * * *
62531921 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAATGTAAGACCATATCTAG
1 AGTGTAAGACATGTCTGAGACATACATCAGCCACATGAT-AGAGCCAATGTAAGACCATATCTAG
**
62531986 GACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAAA-CATGTCTAGGACATGCAGCC
65 GACATGGCATCGGCACGGAGACGAGAGCTAGTGTAAAACCATGTCTAGGACATGCAGCC
* * * * *
62532044 AGTGTAAGACATGTCTGAGACATACATCAGCTACATGAT-GTGTCAGTGTAAGACCATGTCTAGG
1 AGTGTAAGACATGTCTGAGACATACATCAGCCACATGATAGAGCCAATGTAAGACCATATCTAGG
* * *
62532108 ACATGGCATCGGCACGGATACGTGAGAG-TCAGTGTAAAACCATGTTTGGGACATG
66 ACATGGCATCGGCACGGAGAC--GAGAGCT-AGTGTAAAACCATGTCTAGGACATG
62532163 GCATCGACTT
Statistics
Matches: 101, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
121 39 0.39
122 1 0.01
123 48 0.48
124 13 0.13
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (123 bp):
AGTGTAAGACATGTCTGAGACATACATCAGCCACATGATAGAGCCAATGTAAGACCATATCTAGG
ACATGGCATCGGCACGGAGACGAGAGCTAGTGTAAAACCATGTCTAGGACATGCAGCC
Found at i:62532150 original size:50 final size:49
Alignment explanation
Indices: 62532085--62532218 Score: 191
Period size: 47 Copynumber: 2.8 Consensus size: 49
62532075 TACATGATGT
62532085 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGGATACGTGAGA
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGGA-ACGTGAGA
* * * **
62532135 GTCAGTGTAAAACCATGTTTGGGACATGGCATC-G-ACTTAACGTGAGA
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGGAACGTGAGA
*
62532182 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
62532219 TTATACCCTA
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
47 37 0.51
48 4 0.05
49 2 0.03
50 30 0.41
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (49 bp):
GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGGAACGTGAGA
Found at i:62544151 original size:79 final size:81
Alignment explanation
Indices: 62544015--62544199 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
62544005 TTGAATGATG
* *
62544015 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCTTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
62544079 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
62544094 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
62544156 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
62544174 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62544200 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:62544206 original size:40 final size:40
Alignment explanation
Indices: 62544015--62544199 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
62544005 TTGAATGATG
* * * *
62544015 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
62544055 TCCGGACTAAGAT-CCGAAGGCTTTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
62544095 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
62544134 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
62544175 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62544200 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 34 0.27
40 82 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:62544221 original size:79 final size:79
Alignment explanation
Indices: 62544068--62544232 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
62544058 GGACTAAGAT
* * **
62544068 CCGAAGGCTTTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
62544133 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
62544147 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
62544210 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
62544226 CCGAAGG
1 CCGAAGG
62544233 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:62546256 original size:39 final size:39
Alignment explanation
Indices: 62546031--62546244 Score: 338
Period size: 39 Copynumber: 5.4 Consensus size: 39
62546021 CAAAGCATGT
*
62546031 GGGACTTTAAGCCTGGATATAATACCAGCACGAATGCCTTC
1 GGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTTC
**
62546072 GGGACTTAGCCCGGATATAACGCCAGCACGAATGCCTTC
1 GGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTC
**
62546111 GGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTTC
1 GGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTC
* *
62546150 GGGACTTAGCCTGGATATAATACCAACACGAATGCCTTC
1 GGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTC
*
62546189 AGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTC
1 GGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTC
62546228 GGGACTTAGCCCGGATA
1 GGGACTTAGCCCGGATA
62546245 CTTTTCCAGC
Statistics
Matches: 160, Mismatches: 13, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
39 153 0.96
40 2 0.01
41 5 0.03
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.21
Consensus pattern (39 bp):
GGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTC
Found at i:62546256 original size:117 final size:119
Alignment explanation
Indices: 62546031--62546244 Score: 378
Period size: 117 Copynumber: 1.8 Consensus size: 119
62546021 CAAAGCATGT
* * *
62546031 GGGACTTTAAGCCTGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACGCC
1 GGGACTTTAAGCCTGGATATAATACCAACACGAATGCCTTCAGGACTTAGCCCGGATATAACACC
62546096 AGCACGAATGCCTTCGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTTC
66 AGCACGAATGCCTTCGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTTC
*
62546150 GGGAC-TT-AGCCTGGATATAATACCAACACGAATGCCTTCAGGACTTAGCCCGGATATAATACC
1 GGGACTTTAAGCCTGGATATAATACCAACACGAATGCCTTCAGGACTTAGCCCGGATATAACACC
62546213 AGCACGAATGCCTTCGGGACTTAGCCCGGATA
66 AGCACGAATGCCTTCGGGACTTAGCCCGGATA
62546245 CTTTTCCAGC
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
117 84 0.92
118 2 0.02
119 5 0.05
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.21
Consensus pattern (119 bp):
GGGACTTTAAGCCTGGATATAATACCAACACGAATGCCTTCAGGACTTAGCCCGGATATAACACC
AGCACGAATGCCTTCGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTTC
Found at i:62546281 original size:39 final size:39
Alignment explanation
Indices: 62546238--62546369 Score: 205
Period size: 39 Copynumber: 3.4 Consensus size: 39
62546228 GGGACTTAGC
* *
62546238 CCGGATACT-TTTCCAGCACT-TAGCCTGCGGACTTTAAGT
1 CCGGATA-TATTTCCAGCA-TAAAGCCTGCGGACTTCAAGT
62546277 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
1 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
62546316 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
1 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
*
62546355 CCGGATATTTTTCCA
1 CCGGATATATTTCCA
62546370 ATACCATGCA
Statistics
Matches: 88, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
38 2 0.02
39 86 0.98
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
Found at i:62546281 original size:78 final size:80
Alignment explanation
Indices: 62546032--62546362 Score: 324
Period size: 78 Copynumber: 4.2 Consensus size: 80
62546022 AAAGCATGTG
* **
62546032 GGACTTTAAGCCTGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACGCCA
1 GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATTCCA
* *
62546097 GCACGAATGCCTTCG
66 GCACGAATGCCTGCA
** * *
62546112 GGAC-TT-AGCCCGGATATAGCACCAGCACGAATGCCTTCGGGACTTAGCCTGGATATAATACCA
1 GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATTCCA
* *
62546175 ACACGAATGCCTTCA
66 GCACGAATGCCTGCA
*
62546190 GGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATACT-TTTCC
1 GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATA-TAATTCC
**
62546252 AGCACTTA-GCCTGC-
65 AGCACGAATGCCTGCA
* * * * * * * *
62546266 GGACTTTAAGTCCGGATATATTTCCAGCA-TAAAGCCTGC-GGACTTCAAGTCCGGATATATTTC
1 GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTT--AGCCCGGATATAATTC
* *
62546329 CAGCA-TAAAGCCTGC-
64 CAGCACGAATGCCTGCA
* *
62546344 GGACTTCAAGTCCGGATAT
1 GGACTTTAAGCCCGGATAT
62546363 TTTTCCAATA
Statistics
Matches: 218, Mismatches: 26, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
76 10 0.05
77 17 0.08
78 184 0.84
79 3 0.01
80 4 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (80 bp):
GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATTCCA
GCACGAATGCCTGCA
Found at i:62548998 original size:126 final size:126
Alignment explanation
Indices: 62548774--62549276 Score: 715
Period size: 126 Copynumber: 4.0 Consensus size: 126
62548764 GCCAAATAGG
* *
62548774 AACTACTGTAGAAAAAGAGCATCCACGTGAGAGC-TTTTTCAGTACTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCATCCACATGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* * *
62548838 TACTTGAAGCATTTTTTACACTATTTGTTCAGAAACATATTCTCAAAATTATTTTTTTAGA
66 TACTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* ** *
62548899 AACTACTGTAGAAAAATAGTGTCCACATGGGAGCTTTTTTCAGTACTTTTGCTGACAGTTCATCC
1 AACTACTGTAGAAAAAGAGCATCCACATGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* * * *
62548964 TGCTTAAAGCATTTTTGACACTATTTGTTTAGAAATATCTTCTCAAAATTATTTTTTCAGA
66 TACTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* * *
62549025 AACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAATACTTTTGCTGACAGTGCATCT
1 AACTACTGTAGAAAAAGAGCATCCACATGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* * * * *
62549090 TACTTGAAGCGTTTTTTACACTATTTATTCAGAAACATCTTCTCAAGATTATTTTTTCAAA
66 TACTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* * * * *
62549151 AACTATTGTAGAAAAAAAGCATCCA-AGTGGGAGCTTTTTTTAGTACTTTTGCTGATAGTTCATC
1 AACTACTGTAGAAAAAGAGCATCCACA-TGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATC
* *
62549215 C-AGCTTGAAGCATTTTTGACACTATTTGTTCAGAAATATCTTCTCAAAATCATTTTTTCAGA
65 CTA-CTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
62549277 TACGTCTTCT
Statistics
Matches: 331, Mismatches: 44, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
125 30 0.09
126 301 0.91
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (126 bp):
AACTACTGTAGAAAAAGAGCATCCACATGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
TACTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
Found at i:62549228 original size:252 final size:251
Alignment explanation
Indices: 62548774--62549276 Score: 810
Period size: 252 Copynumber: 2.0 Consensus size: 251
62548764 GCCAAATAGG
*
62548774 AACTACTGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTCAGTACTTTTGCTGACAGTGCATCCT
1 AACTACTGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTCAATACTTTTGCTGACAGTGCATCCT
* * *
62548839 ACTTGAAGCATTTTTTACACTATTTGTTCAGAAACATATTCTCAAAATTATTTTTTTAGAAACTA
66 ACTTGAAGCATTTTTTACACTATTTATTCAGAAACATATTCTCAAAATTATTTTTTCAAAAACTA
* ** *
62548904 CTGTAGAAAAATAGTGTCCACATGGGAGCTTTTTTCAGTACTTTTGCTGACAGTTCATCCTGCTT
131 CTGTAGAAAAAAAGCATCCACATGGGAGCTTTTTTCAGTACTTTTGCTGACAGTTCATCCAGCTT
* *
62548969 AAAGCATTTTTGACACTATTTGTTTAGAAATATCTTCTCAAAATTATTTTTTCAGA
196 AAAGCATTTTTGACACTATTTGTTCAGAAATATCTTCTCAAAATCATTTTTTCAGA
* *
62549025 AACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAATACTTTTGCTGACAGTGCATCT
1 AACTACTGTAGAAAAAGAGCATCCACGTGAGAGC-TTTTTCAATACTTTTGCTGACAGTGCATCC
* * *
62549090 TACTTGAAGCGTTTTTTACACTATTTATTCAGAAACATCTTCTCAAGATTATTTTTTCAAAAACT
65 TACTTGAAGCATTTTTTACACTATTTATTCAGAAACATATTCTCAAAATTATTTTTTCAAAAACT
* * *
62549155 ATTGTAGAAAAAAAGCATCCA-AGTGGGAGCTTTTTTTAGTACTTTTGCTGATAGTTCATCCAGC
130 ACTGTAGAAAAAAAGCATCCACA-TGGGAGCTTTTTTCAGTACTTTTGCTGACAGTTCATCCAGC
*
62549219 TTGAAGCATTTTTGACACTATTTGTTCAGAAATATCTTCTCAAAATCATTTTTTCAGA
194 TTAAAGCATTTTTGACACTATTTGTTCAGAAATATCTTCTCAAAATCATTTTTTCAGA
62549277 TACGTCTTCT
Statistics
Matches: 231, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
251 34 0.15
252 197 0.85
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (251 bp):
AACTACTGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTCAATACTTTTGCTGACAGTGCATCCT
ACTTGAAGCATTTTTTACACTATTTATTCAGAAACATATTCTCAAAATTATTTTTTCAAAAACTA
CTGTAGAAAAAAAGCATCCACATGGGAGCTTTTTTCAGTACTTTTGCTGACAGTTCATCCAGCTT
AAAGCATTTTTGACACTATTTGTTCAGAAATATCTTCTCAAAATCATTTTTTCAGA
Found at i:62549306 original size:27 final size:28
Alignment explanation
Indices: 62549266--62549331 Score: 125
Period size: 27 Copynumber: 2.4 Consensus size: 28
62549256 TCTCAAAATC
62549266 ATTTTTTCAGATACGTCTTCTCTAATTT
1 ATTTTTTCAGATACGTCTTCTCTAATTT
62549294 ATTTTTT-AGATACGTCTTCTCTAATTT
1 ATTTTTTCAGATACGTCTTCTCTAATTT
62549321 ATTTTTTCAGA
1 ATTTTTTCAGA
62549332 AACTACTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 27 0.73
28 10 0.27
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.55
Consensus pattern (28 bp):
ATTTTTTCAGATACGTCTTCTCTAATTT
Found at i:62549486 original size:51 final size:51
Alignment explanation
Indices: 62549410--62549508 Score: 121
Period size: 51 Copynumber: 1.9 Consensus size: 51
62549400 AAATTAATCC
* *
62549410 ATAATTTAATTAATTAACCCTAAACCTTAATCTAATTTATTTT-TTAAATTA
1 ATAATTTAATTAATTAACCCAAAACCCTAAT-TAATTTATTTTCTTAAATTA
* * *
62549461 ATAA-TTAATTTAATTAACTCAAAACCCTAATTTATTTTTTTTCTTAAA
1 ATAATTTAA-TTAATTAACCCAAAACCCTAATTAATTTATTTTCTTAAA
62549509 AATTCTAAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 13 0.32
51 28 0.68
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.47
Consensus pattern (51 bp):
ATAATTTAATTAATTAACCCAAAACCCTAATTAATTTATTTTCTTAAATTA
Found at i:62558070 original size:2 final size:2
Alignment explanation
Indices: 62558063--62558087 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
62558053 TAGGAAAAGT
62558063 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
62558088 CTTGGTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:62569644 original size:126 final size:125
Alignment explanation
Indices: 62569397--62570042 Score: 836
Period size: 126 Copynumber: 5.1 Consensus size: 125
62569387 GGCCAAGCAA
* * * *
62569397 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTCTTCAGTAATTTTGCTGACAATGAATC
1 GAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * *
62569462 CTGCTTAAAACGTTTTTGACACTATTTTTTCAGAA-TCGTCTTCTCAAAAGTATTTTTTCAG
66 CTGCTTGAAGCGTTTTT-ACACTATTTTTTCAGAACT-GTCTTCTCAAAATTATTTTTTCAG
* * *
62569523 GAACTATTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGAAAGTCCATC
1 GAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
*
62569588 CTGCTTGAAGCATTTTTACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCGTTTTTACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTTTCAG
* *
62569648 GAACTACTGTAGGAAAAA-AACGTCGATGTGGGAGCTTTTTTCTAGTAATTTTGCTGACAGTGCA
1 GAACTACTGTA-GAAAAAGAGCGTCCATGTGGGAGCTTTTTTC-AGTAATTTTGCTGACAGTGCA
* * * *
62569712 TCCTCCTTAAAGCGTTTTTTACATTATTTTTTCAGAACTGTTTTCTC-AAATTATTTTTTCAG
64 TCCTGCTTGAAGCG-TTTTTACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTTTCAG
* * * *
62569774 GAACTACTGTAGAAAAAAATCGTCCATGTGAGAACTTTTTTCCAGTAATTTTGCTGACAGTGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTT-CAGTAATTTTGCTGACAGTGCAT
* * ** *
62569839 CCTACTTGAAGCGTTTTTGACACTACTTTTTCAGAACCATTTTCTCAAAATTATTTTTT-AG
65 CCTGCTTGAAGCGTTTTT-ACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTTTCAG
* * * *
62569900 GAACTATTGTAGAAAAAGAGCGTTCATATGGGAGCTTTGTTT-AGTAATTTTGCTGACAGTACAT
1 GAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTT-TTTCAGTAATTTTGCTGACAGTGCAT
* * * *
62569964 CTTGCTTGAAGCGTTTTTA-ACATTTTATTTTCAGAACTGTCTTCTCAAAATTAATTTTTCTG
65 CCTGCTTGAAGCGTTTTTACAC-TATT-TTTTCAGAACTGTCTTCTCAAAATTATTTTTTCAG
* *
62570026 AAACTACTGTAAAAAAA
1 GAACTACTGTAGAAAAA
62570043 ATAAAATTCT
Statistics
Matches: 457, Mismatches: 51, Indels: 24
0.86 0.10 0.05
Matches are distributed among these distances:
123 2 0.00
124 3 0.01
125 148 0.32
126 258 0.56
127 46 0.10
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (125 bp):
GAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCGTTTTTACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTTTCAG
Found at i:62569904 original size:252 final size:251
Alignment explanation
Indices: 62569397--62570044 Score: 862
Period size: 251 Copynumber: 2.6 Consensus size: 251
62569387 GGCCAAGCAA
* * *
62569397 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTCTTC-AGTAATTTTGCTGACAATGAAT
1 GAACTACTGTAGAAAAAGAGCGT-CATGTGGGAGCTTTCTTCTAGTAATTTTGCTGACAGTGCAT
* * * *
62569461 CCTGCTTAAAACGTTTTTGACACTATTTTTTCAGAA-TCGTCTTCTCAAAAGTATTTTTTCAGGA
65 CCTGCTTAAAGCGTTTTTAACATTATTTTTTCAGAACT-GTCTTCTCAAAATTATTTTTTCAGGA
* * * * *
62569525 ACTATTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGAAAGTCCATCCT
129 ACTACTGTAGAAAAAAATCGTCCATGTGAGAACTTTTTTCAGTAATTTTGCTGAAAGTCCATCCT
* * **
62569590 GCTTGAAGCATTTTTACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTTTCAG
194 ACTTGAAGCATTTTTACACTACTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAG
* *
62569648 GAACTACTGTAGGAAAAA-AACGTCGATGTGGGAGCTTTTTTCTAGTAATTTTGCTGACAGTGCA
1 GAACTACTGTA-GAAAAAGAGCGTC-ATGTGGGAGCTTTCTTCTAGTAATTTTGCTGACAGTGCA
* * *
62569712 TCCTCCTTAAAGCGTTTTTTACATTATTTTTTCAGAACTGTTTTCTC-AAATTATTTTTTCAGGA
64 TCCTGCTTAAAGCGTTTTTAACATTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTTTCAGGA
* *
62569776 ACTACTGTAGAAAAAAATCGTCCATGTGAGAACTTTTTTCCAGTAATTTTGCTGACAGTGCATCC
129 ACTACTGTAGAAAAAAATCGTCCATGTGAGAACTTTTTT-CAGTAATTTTGCTGAAAGTCCATCC
* *
62569841 TACTTGAAGCGTTTTTGACACTACTTTTTCAGAACCATTTTCTCAAAATTATTTTTT-AG
193 TACTTGAAGCATTTTT-ACACTACTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAG
* * * *
62569900 GAACTATTGTAGAAAAAGAGCGTTCATATGGGAGCTTTGTT-TAGTAATTTTGCTGACAGTACAT
1 GAACTACTGTAGAAAAAGAGCG-TCATGTGGGAGCTTTCTTCTAGTAATTTTGCTGACAGTGCAT
* * * * *
62569964 CTTGCTTGAAGCGTTTTTAACATT-TTATTTTCAGAACTGTCTTCTCAAAATTAATTTTTCTGAA
65 CCTGCTTAAAGCGTTTTTAACATTATT-TTTTCAGAACTGTCTTCTCAAAATTATTTTTTCAGGA
62570028 ACTACTGTA-AAAAAAAT
129 ACTACTGTAGAAAAAAAT
62570045 AAAATTCTTC
Statistics
Matches: 350, Mismatches: 37, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
250 3 0.01
251 154 0.44
252 154 0.44
253 39 0.11
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (251 bp):
GAACTACTGTAGAAAAAGAGCGTCATGTGGGAGCTTTCTTCTAGTAATTTTGCTGACAGTGCATC
CTGCTTAAAGCGTTTTTAACATTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTTTCAGGAAC
TACTGTAGAAAAAAATCGTCCATGTGAGAACTTTTTTCAGTAATTTTGCTGAAAGTCCATCCTAC
TTGAAGCATTTTTACACTACTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAG
Found at i:62570168 original size:35 final size:34
Alignment explanation
Indices: 62570124--62570254 Score: 101
Period size: 35 Copynumber: 3.9 Consensus size: 34
62570114 TTAAACACAA
* *
62570124 AATTATTTTAAAAAAACTAAACCCTAATTTAATT
1 AATTTTTTTAAAAAAACTAAAACCTAATTTAATT
*** *
62570158 AATTTTTTTTAAAAGCTCTAAAAACTAATTTAATT
1 AA-TTTTTTTAAAAAAACTAAAACCTAATTTAATT
* ***
62570193 AATTTGTTTAAAACTCCTAAAACCTAA--T--TT
1 AATTTTTTTAAAAAAACTAAAACCTAATTTAATT
*
62570223 -ATTTTTTTAAAAAAATTCTAAACCCTAATTTA
1 AATTTTTTTAAAAAAA--CTAAAACCTAATTTA
62570255 TTTTTTAAAA
Statistics
Matches: 75, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
29 11 0.15
30 2 0.03
31 10 0.13
32 1 0.01
33 1 0.01
34 22 0.29
35 28 0.37
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (34 bp):
AATTTTTTTAAAAAAACTAAAACCTAATTTAATT
Found at i:62570213 original size:34 final size:35
Alignment explanation
Indices: 62570147--62570223 Score: 113
Period size: 34 Copynumber: 2.2 Consensus size: 35
62570137 AAACTAAACC
*
62570147 CTAATTTAATTAATTTTTTTTAAAAGCTCTAAAAA
1 CTAATTTAATTAATTTTGTTTAAAAGCTCTAAAAA
*
62570182 CTAATTTAATTAA-TTTGTTTAAAA-CTCCTAAAAC
1 CTAATTTAATTAATTTTGTTTAAAAGCT-CTAAAAA
62570216 CTAATTTA
1 CTAATTTA
62570224 TTTTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
33 2 0.05
34 24 0.62
35 13 0.33
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.44
Consensus pattern (35 bp):
CTAATTTAATTAATTTTGTTTAAAAGCTCTAAAAA
Found at i:62575060 original size:93 final size:92
Alignment explanation
Indices: 62574928--62575122 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
62574918 TTGATTTTAG
* *
62574928 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
* *
62574992 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
62575020 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
62575085 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
62575113 CAAATTCATA
1 TAAATTCATA
62575123 AACTATAATC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 17 0.18
93 71 0.76
94 5 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Done.