Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 54 of 182
Found at i:16810088 original size:202 final size:200
Alignment explanation
Indices: 16809775--16810166 Score: 576
Period size: 201 Copynumber: 1.9 Consensus size: 200
16809765 TAAACTAAAA
*
16809775 ACCCTAAACAAATTTATTATTATCTCTTTTACGATATATAAGAACATATTTAAAATATAAATTAC
1 ACCCTAAACAAATTTATTATTATCTCTTTTACAATATATAAGAACATATTTAAAATATAAATTAC
* *
16809840 AAAAATAATTAATCTAAACCCAAAACCCTAACTCGACCCCTGAATCCCT-AACTTTTAACCCCTA
66 AAAAATAATTAATCTAAACCCAAAACCCTAACTCGACCCCTGAATCCCTAAACCTTAAACCCCTA
* * * * *
16809904 ACGTGTCTAACCCCTAAACCTCTAACCCTTTAA-CCCTTAAACCTTAAATCCCAACCCTTAAATA
131 AC-T-TCTAACCCCCAAACCCCAAACCCTCTAATCCC-TAAACATTAAATCCCAACCCTTAAATA
16809968 AATCATAT
193 AATCATAT
16809976 ACCCTAAACAAATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTA
1 ACCCTAAACAAATTTATTATTATCTCTTTTACAA-TATATAAGAACATATTTAAAATATAAATTA
* * *
16810041 -AAAAA-AATTAATCTAAACGCCCAAAATCCTAACTCGACCCTTGAATCCCTAAACCTTAAATCC
65 CAAAAATAATTAATCTAAA--CCCAAAACCCTAACTCGACCCCTGAATCCCTAAACCTTAAACCC
* * *
16810104 CTAACTTTTAACCCCCAAACCCCAAACCCTCTAATCCCTAAACATTAATTCTCAACCCTTAAA
128 CTAACTTCTAACCCCCAAACCCCAAACCCTCTAATCCCTAAACATTAAATCCCAACCCTTAAA
16810167 CCATAATCCC
Statistics
Matches: 172, Mismatches: 14, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
200 12 0.07
201 83 0.48
202 63 0.37
203 14 0.08
ACGTcount: A:0.41, C:0.27, G:0.03, T:0.30
Consensus pattern (200 bp):
ACCCTAAACAAATTTATTATTATCTCTTTTACAATATATAAGAACATATTTAAAATATAAATTAC
AAAAATAATTAATCTAAACCCAAAACCCTAACTCGACCCCTGAATCCCTAAACCTTAAACCCCTA
ACTTCTAACCCCCAAACCCCAAACCCTCTAATCCCTAAACATTAAATCCCAACCCTTAAATAAAT
CATAT
Found at i:16810613 original size:41 final size:41
Alignment explanation
Indices: 16810553--16810670 Score: 191
Period size: 41 Copynumber: 2.9 Consensus size: 41
16810543 TAAAATGTTT
* *
16810553 TTAGCGACGCTTTTCGAAAAACGCCTCTAAAGCCCCCAGCA
1 TTAGCGACGCTTTTTGAAAAACGCCGCTAAAGCCCCCAGCA
16810594 TTAGCGACGCTTTTTGAAAAACGCCGCTAAAGCCCCCAGCA
1 TTAGCGACGCTTTTTGAAAAACGCCGCTAAAGCCCCCAGCA
* * *
16810635 TTAGCGGCGCTTTTTTAAAAACGACGCTAAAGCCCC
1 TTAGCGACGCTTTTTGAAAAACGCCGCTAAAGCCCC
16810671 GAAAGGTAAG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (41 bp):
TTAGCGACGCTTTTTGAAAAACGCCGCTAAAGCCCCCAGCA
Found at i:16813149 original size:22 final size:23
Alignment explanation
Indices: 16813101--16813155 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
16813091 ATGAGGTTAT
* *
16813101 GCTTAATTAATTGGTTTAATTAG
1 GCTTAATTAATTGATTTAATTAA
16813124 GCTTAATTAA-TGATTT-ATTAAA
1 GCTTAATTAATTGATTTAATT-AA
16813146 GCTTAATTAA
1 GCTTAATTAA
16813156 AAAAGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 3 0.10
22 16 0.55
23 10 0.34
ACGTcount: A:0.36, C:0.05, G:0.13, T:0.45
Consensus pattern (23 bp):
GCTTAATTAATTGATTTAATTAA
Found at i:16814046 original size:37 final size:38
Alignment explanation
Indices: 16813983--16814087 Score: 99
Period size: 37 Copynumber: 2.8 Consensus size: 38
16813973 TACTGGTTCC
* * * * * *
16813983 ACTGAAAGTAGCTCAAACTACT-AAATTTTATTGTTAT
1 ACTGAATGAAGCTCAAACGAGTAAAATTCTACTGTTAT
* *
16814020 ACTGAGTGAAGCTCAAATGAG-AAAATTCTACTGTTAT
1 ACTGAATGAAGCTCAAACGAGTAAAATTCTACTGTTAT
* *
16814057 GCTGAATGGAGCTCAAACGAGTAAAA-TCTAC
1 ACTGAATGAAGCTCAAACGAGTAAAATTCTAC
16814088 AAATATACTA
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
37 50 0.93
38 4 0.07
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (38 bp):
ACTGAATGAAGCTCAAACGAGTAAAATTCTACTGTTAT
Found at i:16817712 original size:36 final size:35
Alignment explanation
Indices: 16817584--16817702 Score: 175
Period size: 36 Copynumber: 3.3 Consensus size: 35
16817574 ACTCTCTGTT
* **
16817584 TTGGTGTGTTTCAGTTGGATTAGCTCTTCGGAGCCA
1 TTGGTGTGTTTCAGATGGATTAGCTCTTATGAG-CA
16817620 TTGGTGTGTTTCAGATGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTCAGATGGATTAGCTCTTATGAGCA
*
16817655 TTTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
1 -TTGGTGTGTTTCAGATGGATTAGCTCTTATGAGCA
16817691 TCTGGTGTGTTT
1 T-TGGTGTGTTT
16817703 TGGTTGGATT
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
35 3 0.04
36 74 0.96
ACGTcount: A:0.15, C:0.13, G:0.30, T:0.42
Consensus pattern (35 bp):
TTGGTGTGTTTCAGATGGATTAGCTCTTATGAGCA
Found at i:16827314 original size:9 final size:9
Alignment explanation
Indices: 16827297--16827333 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
16827287 TGAGTTTTTG
16827297 AATTCGAAT
1 AATTCGAAT
*
16827306 AACTCGAAT
1 AATTCGAAT
16827315 AATTCGAAT
1 AATTCGAAT
16827324 AATTCGAAT
1 AATTCGAAT
16827333 A
1 A
16827334 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:16828257 original size:5 final size:5
Alignment explanation
Indices: 16828247--16828282 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
16828237 GAACAAATAT
**
16828247 ATTCG ATTCG ATTCG ATTCG ATTTT ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
16828283 ATTCCATCTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (5 bp):
ATTCG
Found at i:16828532 original size:22 final size:21
Alignment explanation
Indices: 16828504--16828561 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
16828494 ATGCAATCTT
*
16828504 AGATATGATATGTAATCTTAG
1 AGATATGATTTGTAATCTTAG
16828525 AAGATATGATTTTGTAATCTTAG
1 -AGATATGA-TTTGTAATCTTAG
*
16828548 AGATTTGATTTGTA
1 AGATATGATTTGTA
16828562 GATACCTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 6 0.18
22 15 0.45
23 12 0.36
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.43
Consensus pattern (21 bp):
AGATATGATTTGTAATCTTAG
Found at i:16831432 original size:31 final size:31
Alignment explanation
Indices: 16831394--16831456 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
16831384 AAAGATAACC
16831394 TAAGCTTCACACTTATGGTTCCTTCTTTGAA
1 TAAGCTTCACACTTATGGTTCCTTCTTTGAA
16831425 TAAGCTTCACACTTATGGTTCCTTCTTTGAA
1 TAAGCTTCACACTTATGGTTCCTTCTTTGAA
16831456 T
1 T
16831457 TACACAACCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (31 bp):
TAAGCTTCACACTTATGGTTCCTTCTTTGAA
Found at i:16842507 original size:77 final size:77
Alignment explanation
Indices: 16842397--16842541 Score: 272
Period size: 77 Copynumber: 1.9 Consensus size: 77
16842387 AATAAAATTA
*
16842397 TATCCATTTTATAGACATATAATTCATATCAAATTAGTCCCTAGAGTTCAACAATTTTCTAAAAT
1 TATCCATTTTATAGACATATAATTCATATCAAATTAGTCCCTAGAGTTCAACAATTTTATAAAAT
16842462 TGTTATTTCCAT
66 TGTTATTTCCAT
*
16842474 TATCCATTTTATAGACATATCATTCATATCAAATTAGTCCCTAGAGTTCAACAATTTTATAAAAT
1 TATCCATTTTATAGACATATAATTCATATCAAATTAGTCCCTAGAGTTCAACAATTTTATAAAAT
16842539 TGT
66 TGT
16842542 ACATTCCATT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 66 1.00
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.41
Consensus pattern (77 bp):
TATCCATTTTATAGACATATAATTCATATCAAATTAGTCCCTAGAGTTCAACAATTTTATAAAAT
TGTTATTTCCAT
Found at i:16842732 original size:28 final size:28
Alignment explanation
Indices: 16842693--16842790 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
16842683 ACAAAGTGTA
*
16842693 AATAACGTTAAGCACCGAAGTGCAAAAT
1 AATAACGATAAGCACCGAAGTGCAAAAT
* * *
16842721 AATAATGATAAGCACCAAAGTGCAAAGTTT
1 AATAACGATAAGCACCGAAGTGCAAA--AT
* * *
16842751 TACAACGATAAGCACCGAAGTGCGAAAT
1 AATAACGATAAGCACCGAAGTGCAAAAT
16842779 AAT-ACGATAAGC
1 AATAACGATAAGC
16842791 GCTCTAATTT
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
27 9 0.16
28 25 0.45
30 22 0.39
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.18
Consensus pattern (28 bp):
AATAACGATAAGCACCGAAGTGCAAAAT
Found at i:16845244 original size:21 final size:21
Alignment explanation
Indices: 16845211--16845251 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16845201 CAAGTGCATT
* *
16845211 AGCTTTTATGAGCTTCTGTTC
1 AGCTCTTAGGAGCTTCTGTTC
16845232 AGCTCTTAGGAGCTTCTGTT
1 AGCTCTTAGGAGCTTCTGTT
16845252 GGCGTGTTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.20, G:0.22, T:0.44
Consensus pattern (21 bp):
AGCTCTTAGGAGCTTCTGTTC
Found at i:16847524 original size:21 final size:23
Alignment explanation
Indices: 16847485--16847526 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
16847475 GTTAGGGGTG
*
16847485 TTACACCATCCATCTTTACACTT
1 TTACACCATCCATCATTACACTT
16847508 TTAC-CCAT-CATCATTACAC
1 TTACACCATCCATCATTACAC
16847527 CTTAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 4 0.22
23 4 0.22
ACGTcount: A:0.29, C:0.36, G:0.00, T:0.36
Consensus pattern (23 bp):
TTACACCATCCATCATTACACTT
Found at i:16849661 original size:9 final size:9
Alignment explanation
Indices: 16849647--16849722 Score: 98
Period size: 9 Copynumber: 8.4 Consensus size: 9
16849637 GTAGTGATTC
16849647 AATTCGGTT
1 AATTCGGTT
*
16849656 AATTCGGGT
1 AATTCGGTT
* *
16849665 AATTTGGAT
1 AATTCGGTT
16849674 AATTCGGTT
1 AATTCGGTT
*
16849683 AATTCGGGT
1 AATTCGGTT
*
16849692 AATTCAGTT
1 AATTCGGTT
16849701 AATTCGGTT
1 AATTCGGTT
*
16849710 AATTCGATT
1 AATTCGGTT
16849719 AATT
1 AATT
16849723 TTTAACCAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:16849722 original size:27 final size:27
Alignment explanation
Indices: 16849647--16849715 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
16849637 GTAGTGATTC
**
16849647 AATTCGGTTAATTCGGGTAATTTGGAT
1 AATTCGGTTAATTCGGGTAATTCAGAT
*
16849674 AATTCGGTTAATTCGGGTAATTCAGTT
1 AATTCGGTTAATTCGGGTAATTCAGAT
16849701 AATTCGGTTAATTCG
1 AATTCGGTTAATTCG
16849716 ATTAATTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (27 bp):
AATTCGGTTAATTCGGGTAATTCAGAT
Found at i:16850123 original size:20 final size:19
Alignment explanation
Indices: 16850070--16850129 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
16850060 CCGAATTATA
16850070 TATTAAATATATAT-TTTT
1 TATTAAATATATATATTTT
* * *
16850088 ATTTTTAATCAAATATACTTTT
1 -TATTAAAT-ATATATA-TTTT
16850110 TATTAAATATATATATTTT
1 TATTAAATATATATATTTT
16850129 T
1 T
16850130 GACTTTTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
19 11 0.34
20 11 0.34
21 6 0.19
22 4 0.12
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTAAATATATATATTTT
Found at i:16853112 original size:20 final size:20
Alignment explanation
Indices: 16853087--16853125 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
16853077 CAAATTAATA
16853087 ATTATTGCATTAATTAAACC
1 ATTATTGCATTAATTAAACC
16853107 ATTATTGCATTAATTAAAC
1 ATTATTGCATTAATTAAAC
16853126 ATTTCTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (20 bp):
ATTATTGCATTAATTAAACC
Found at i:16862935 original size:12 final size:12
Alignment explanation
Indices: 16862918--16862945 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
16862908 TTAATGACTA
16862918 ATACATATATAC
1 ATACATATATAC
16862930 ATACATATATAC
1 ATACATATATAC
16862942 ATAC
1 ATAC
16862946 GTACGTACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (12 bp):
ATACATATATAC
Found at i:16864076 original size:23 final size:23
Alignment explanation
Indices: 16864045--16864088 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
16864035 GTGGGAGCTT
16864045 ATTGACACTTTCGTGCGATTGTG
1 ATTGACACTTTCGTGCGATTGTG
* *
16864068 ATTGGCACTTTGGTGCGATTG
1 ATTGACACTTTCGTGCGATTG
16864089 ATACTGGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.30, T:0.39
Consensus pattern (23 bp):
ATTGACACTTTCGTGCGATTGTG
Found at i:16864096 original size:23 final size:23
Alignment explanation
Indices: 16864050--16864097 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
16864040 AGCTTATTGA
*
16864050 CACTTTCGTGCGATTGTGATTGG
1 CACTTTCGTGCGATTGTGACTGG
*
16864073 CACTTTGGTGCGATTGAT-ACTGG
1 CACTTTCGTGCGATTG-TGACTGG
16864096 CA
1 CA
16864098 ATACAATGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (23 bp):
CACTTTCGTGCGATTGTGACTGG
Found at i:16870894 original size:14 final size:14
Alignment explanation
Indices: 16870877--16870908 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
16870867 AGCACGGTAG
16870877 AAAAGAAAAAAAGA
1 AAAAGAAAAAAAGA
*
16870891 AAAAGAAAAGAAGA
1 AAAAGAAAAAAAGA
16870905 AAAA
1 AAAA
16870909 CTAATGACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAGA
Found at i:16871047 original size:30 final size:28
Alignment explanation
Indices: 16870977--16871051 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
16870967 TTACCTCAAG
16870977 TTACATTTTAGTCACTTATGTTTGAAATT
1 TTACATTTTAGTCAC-TATGTTTGAAATT
*
16871006 TTACGTTTTAGTCACTATG-TT-AACATGT
1 TTACATTTTAGTCACTATGTTTGAA-AT-T
16871034 TGTAACATTTTAGTCACT
1 T-T-ACATTTTAGTCACT
16871052 GAGTCGTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 2 0.05
27 4 0.10
28 6 0.15
29 15 0.38
30 13 0.32
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.48
Consensus pattern (28 bp):
TTACATTTTAGTCACTATGTTTGAAATT
Found at i:16871209 original size:21 final size:21
Alignment explanation
Indices: 16871183--16871222 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16871173 ATTTAATTTT
16871183 TTTCTTTTATGTTCTTTTAAC
1 TTTCTTTTATGTTCTTTTAAC
* *
16871204 TTTCTTTTTTTTTCTTTTA
1 TTTCTTTTATGTTCTTTTA
16871223 CTTCTGCTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.12, G:0.03, T:0.75
Consensus pattern (21 bp):
TTTCTTTTATGTTCTTTTAAC
Found at i:16891711 original size:31 final size:30
Alignment explanation
Indices: 16891675--16891744 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
16891665 ATTTTAAAAG
* *
16891675 TTTAAAAAA-TTTATAAAATAGTATTTAAAT
1 TTTAAAAAAGTATAAAAAATA-TATTTAAAT
*
16891705 TATTAAAAAAGTATAAAAAATATTTTTAAAT
1 T-TTAAAAAAGTATAAAAAATATATTTAAAT
16891736 TTTAAAAAA
1 TTTAAAAAA
16891745 ATTAATTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 9 0.26
31 17 0.49
32 9 0.26
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (30 bp):
TTTAAAAAAGTATAAAAAATATATTTAAAT
Found at i:16891728 original size:20 final size:21
Alignment explanation
Indices: 16891670--16891728 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
16891660 TTTAAATTTT
*
16891670 AAAAGTTTAAAAAAT-TTATA
1 AAAAGTATAAAAAATATTATA
** *
16891690 AAATAGTATTTAAATTATTA-A
1 AAA-AGTATAAAAAATATTATA
16891711 AAAAGTATAAAAAATATT
1 AAAAGTATAAAAAATATT
16891729 TTTAAATTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
20 15 0.50
21 12 0.40
22 3 0.10
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (21 bp):
AAAAGTATAAAAAATATTATA
Found at i:16893812 original size:12 final size:11
Alignment explanation
Indices: 16893795--16893833 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
16893785 TAATCCGTGA
16893795 TTTCTTTTTCTT
1 TTTCTTTTT-TT
16893807 TTTCTTTTTTT
1 TTTCTTTTTTT
*
16893818 TTTTTTTATTTT
1 TTTCTTT-TTTT
16893830 TTTC
1 TTTC
16893834 AAAAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:16893823 original size:15 final size:15
Alignment explanation
Indices: 16893794--16893832 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
16893784 CTAATCCGTG
16893794 ATTTCTTTTTCTTTTT
1 ATTT-TTTTTCTTTTT
* *
16893810 CTTTTTTTTTTTTTT
1 ATTTTTTTTCTTTTT
16893825 ATTTTTTT
1 ATTTTTTT
16893833 CAAAAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 17 0.85
16 3 0.15
ACGTcount: A:0.05, C:0.08, G:0.00, T:0.87
Consensus pattern (15 bp):
ATTTTTTTTCTTTTT
Found at i:16893922 original size:18 final size:18
Alignment explanation
Indices: 16893895--16893953 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 18
16893885 ATTTACTAAA
*
16893895 ATAATCATTTTAAATTTT
1 ATAATAATTTTAAATTTT
* * *
16893913 ATAATTATTTTTATATTTA
1 ATAA-TAATTTTAAATTTT
*
16893932 ATTAATAATTTTAATTTTT
1 A-TAATAATTTTAAATTTT
16893951 ATA
1 ATA
16893954 TGATTTATTA
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
18 6 0.19
19 22 0.71
20 3 0.10
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
ATAATAATTTTAAATTTT
Found at i:16893930 original size:19 final size:19
Alignment explanation
Indices: 16893902--16893966 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
16893892 AAAATAATCA
* *
16893902 TTTTAAATTTTATAATTAT
1 TTTTATATTTTATAATAAT
*
16893921 TTTTATATTTAATTAATAAT
1 TTTTATATTTTA-TAATAAT
* *
16893941 TTTAAT-TTTTAT-ATGAT
1 TTTTATATTTTATAATAAT
16893958 TTATTATAT
1 TT-TTATAT
16893967 AAATTAATGT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
17 6 0.17
18 4 0.11
19 15 0.42
20 11 0.31
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTTATATTTTATAATAAT
Found at i:16893972 original size:37 final size:38
Alignment explanation
Indices: 16893891--16893974 Score: 100
Period size: 38 Copynumber: 2.2 Consensus size: 38
16893881 AAATATTTAC
* * *
16893891 TAAAATAATCATTTTAAATTTTATAATTATTTTTATAT
1 TAAATTAATAATTTTAAATTTTATAATGATTTTTATAT
* *
16893929 TTAATTAATAATTTTAATTTTTAT-ATGATTTATTATA-
1 TAAATTAATAATTTTAAATTTTATAATGATTT-TTATAT
16893966 TAAATTAAT
1 TAAATTAAT
16893975 GTAAATTTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
37 14 0.36
38 25 0.64
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (38 bp):
TAAATTAATAATTTTAAATTTTATAATGATTTTTATAT
Found at i:16894723 original size:13 final size:12
Alignment explanation
Indices: 16894705--16894743 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
16894695 AAAAATGTAT
16894705 TAATTAAAATAAA
1 TAATTAAAA-AAA
*
16894718 TAATTAATAAAA
1 TAATTAAAAAAA
16894730 TATATTAAAAAAA
1 TA-ATTAAAAAAA
16894743 T
1 T
16894744 TTAATTATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 5 0.22
13 18 0.78
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TAATTAAAAAAA
Found at i:16894805 original size:24 final size:25
Alignment explanation
Indices: 16894778--16894831 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
16894768 GCATAAAGGT
*
16894778 TATTATAT-ATTTTTTGATT-TAATA
1 TATTATATAATTTCTT-ATTATAATA
16894802 TATT-TATAATTTCTTATTATAATA
1 TATTATATAATTTCTTATTATAATA
16894826 TATTAT
1 TATTAT
16894832 TTATGATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 6 0.23
24 19 0.73
25 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (25 bp):
TATTATATAATTTCTTATTATAATA
Found at i:16900462 original size:41 final size:40
Alignment explanation
Indices: 16900412--16900642 Score: 257
Period size: 41 Copynumber: 5.6 Consensus size: 40
16900402 AAACAGATTG
*
16900412 ACCGGCACTTAGCCTGTTAGGCTTAAAGCCTGATTCAGATC
1 ACCGGCACTTAGCCTGCTAGGCTTAAA-CCTGATTCAGATC
*
16900453 ACCGACACTTAGCCTGCTAGGCTTATAACCTGATTCAGATC
1 ACCGGCACTTAGCCTGCTAGGCTTA-AACCTGATTCAGATC
* * *
16900494 ACCGGTACTTAGCCTGCTAGGCTTATAGCCTGGTTCAGATC
1 ACCGGCACTTAGCCTGCTAGGCTTA-AACCTGATTCAGATC
*
16900535 ACCGGCACTTAGCCTGCTAGGCTTATAACCTGGTTCAGATC
1 ACCGGCACTTAGCCTGCTAGGCTTA-AACCTGATTCAGATC
* * * * *
16900576 ACTGACACTTAGCCTGTTAGGTTTTAAAACCTTATTCAG-TAC
1 ACCGGCACTTAGCCTGCTAGG-CTT-AAACCTGATTCAGAT-C
* ** *
16900618 ACCAGCTTTTAGCCTGCTAGACTTA
1 ACCGGCACTTAGCCTGCTAGGCTTA
16900643 CAGTTCGAAA
Statistics
Matches: 164, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
40 1 0.01
41 133 0.81
42 29 0.18
43 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (40 bp):
ACCGGCACTTAGCCTGCTAGGCTTAAACCTGATTCAGATC
Found at i:16900549 original size:82 final size:82
Alignment explanation
Indices: 16900412--16900614 Score: 298
Period size: 82 Copynumber: 2.5 Consensus size: 82
16900402 AAACAGATTG
16900412 ACCGGCACTTAGCCTGTTAGGCTTAAAGCCTGATTCAGATCACCGACACTTAGCCTGCTAGGCTT
1 ACCGGCACTTAGCCTGTTAGGCTTAAAGCCTGATTCAGATCACCGACACTTAGCCTGCTAGGCTT
16900477 ATAACCTGATTCAGATC
66 ATAACCTGATTCAGATC
* * * * *
16900494 ACCGGTACTTAGCCTGCTAGGCTTATAGCCTGGTTCAGATCACCGGCACTTAGCCTGCTAGGCTT
1 ACCGGCACTTAGCCTGTTAGGCTTAAAGCCTGATTCAGATCACCGACACTTAGCCTGCTAGGCTT
*
16900559 ATAACCTGGTTCAGATC
66 ATAACCTGATTCAGATC
* * * * *
16900576 ACTGACACTTAGCCTGTTAGGTTTTAAAACCTTATTCAG
1 ACCGGCACTTAGCCTGTTAGG-CTTAAAGCCTGATTCAG
16900615 TACACCAGCT
Statistics
Matches: 105, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
82 93 0.89
83 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (82 bp):
ACCGGCACTTAGCCTGTTAGGCTTAAAGCCTGATTCAGATCACCGACACTTAGCCTGCTAGGCTT
ATAACCTGATTCAGATC
Found at i:16901084 original size:78 final size:77
Alignment explanation
Indices: 16900992--16901169 Score: 191
Period size: 78 Copynumber: 2.3 Consensus size: 77
16900982 TTCGAATGTC
* * * *
16900992 ACATATACCTATATAATTTCATACCCTA-TTTCAATAACAA-AACTTATACATGTACATATATAC
1 ACATATACATATATAATTTCATACCCTACATTCAA-AACAAGAACTTATACATGTACACACATAC
16901055 ATATTCAAATCTA
65 ATATTCAAATCTA
* * * * * * *
16901068 CCATATATACATATATAATTTTATA-CTTACATTCGAAACAAGTACTTATACTTGTATACACATA
1 --ACATATACATATATAATTTCATACCCTACATTCAAAACAAGAACTTATACATGTACACACATA
* *
16901132 CATTTTCAAATTTA
64 CATATTCAAATCTA
16901146 ACATATACATATATAATTTCATAC
1 ACATATACATATATAATTTCATAC
16901170 TTATACTCAA
Statistics
Matches: 82, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
76 21 0.26
77 8 0.10
78 53 0.65
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.38
Consensus pattern (77 bp):
ACATATACATATATAATTTCATACCCTACATTCAAAACAAGAACTTATACATGTACACACATACA
TATTCAAATCTA
Found at i:16901465 original size:82 final size:78
Alignment explanation
Indices: 16901344--16901625 Score: 467
Period size: 78 Copynumber: 3.6 Consensus size: 78
16901334 ACATTCAACA
*
16901344 TTAACTAAATTCAA-AACTTATTCATGTATATACACATATATCCGAACTTCATATATATATATAA
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAAC-T--T-TATATATATAA
16901408 ATATAACATACATACTT
62 ATATAACATACATACTT
* *
16901425 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATCCAAACTTTATATATATAAATAT
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
16901490 AACATACATACTT
66 AACATACATACTT
*
16901503 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
16901568 AACATACATACTT
66 AACATACATACTT
*
16901581 TTAACTAAATTCAAGAACTTATACATGTATATACATATATTATCC
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATA-TATCC
16901626 ACTATTAGTT
Statistics
Matches: 193, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
78 142 0.74
79 6 0.03
81 15 0.08
82 30 0.16
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.39
Consensus pattern (78 bp):
TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
AACATACATACTT
Found at i:16901519 original size:78 final size:79
Alignment explanation
Indices: 16901243--16901626 Score: 464
Period size: 78 Copynumber: 4.9 Consensus size: 79
16901233 TATATTATAC
* * * *
16901243 ATATATATATGTAACATCCATACTTTTAA-TAAAATCCAAGAATTTATACTCA--TATATACATA
1 ATATATAAATATAACATACATACTTTTAACT-AAATTCAAGAATTTAT--TCATGTATATACATA
** * *
16901305 CCTATTCAAACCTCTTGT
63 TATATCCAAA-CTCTTAT
* * * * * *
16901323 A-A-ACATATATAACATTCA-AC-ATTAACTAAATTCAA-AACTTATTCATGTATATACACATAT
1 ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATACATATAT
*
16901383 ATCCGAACTTCATATAT
66 ATCCAAAC-TC-T-TAT
16901400 ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATACATATAT
1 ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATACATATAT
16901465 ATCCAAACT-TTAT
66 ATCCAAACTCTTAT
16901478 ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATACATATAT
1 ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATACATATAT
*
16901543 ATCCGAACT-TTAT
66 ATCCAAACTCTTAT
* *
16901556 ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATACATATAT
1 ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATACATATA-
16901621 TATCCA
65 TATCCA
16901627 CTATTAGTTC
Statistics
Matches: 269, Mismatches: 23, Indels: 25
0.85 0.07 0.08
Matches are distributed among these distances:
73 3 0.01
74 1 0.00
75 23 0.09
76 12 0.04
77 6 0.02
78 156 0.58
79 20 0.07
80 3 0.01
81 15 0.06
82 30 0.11
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (79 bp):
ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATACATATAT
ATCCAAACTCTTAT
Found at i:16901592 original size:156 final size:156
Alignment explanation
Indices: 16901238--16901626 Score: 479
Period size: 157 Copynumber: 2.5 Consensus size: 156
16901228 TCAAATATAT
* * * * *
16901238 TATACATATATATATGTAACATCCATACTTTTAA-TAAAATCCAAGAATTTATACTCA--TATAT
1 TATATATATATAAATATAACATACATACTTTTAACT-AAATTCAAGAATTTAT--TCATGTATAT
** * * * *
16901300 ACATACCTATTCAAACCTCTTGTAAACATATATAACATTCAACATTAACTAAATTCAAAACTTAT
63 ACATATATATCCAAACCTCTTATAAACAAATATAACATACAACATTAACTAAATTCAAAACTTAT
16901365 TCATGTATATACACATATATCCGAACTTCA
128 TCATGTATATACACATATATCCGAACTT-A
16901395 TATATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATACA
1 TATATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATACA
* * *
16901460 TATATATCCAAA-CT-TTATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTT
66 TATATATCCAAACCTCTTATA-A-ACAAATATAACATACA-AC-ATTAACTAAATTCAA-AACTT
*
16901523 ATTCATGTATATACATATATATCCGAAC-T-
126 ATTCATGTATATACACATATATCCGAACTTA
* *
16901552 T-TATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATACA
1 TATATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATACA
16901616 TATATTATCCA
66 TATA-TATCCA
16901627 CTATTAGTTC
Statistics
Matches: 206, Mismatches: 17, Indels: 18
0.85 0.07 0.07
Matches are distributed among these distances:
155 7 0.03
156 68 0.33
157 82 0.40
158 3 0.01
159 15 0.07
160 31 0.15
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (156 bp):
TATATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATACA
TATATATCCAAACCTCTTATAAACAAATATAACATACAACATTAACTAAATTCAAAACTTATTCA
TGTATATACACATATATCCGAACTTA
Found at i:16904333 original size:43 final size:43
Alignment explanation
Indices: 16904269--16904491 Score: 259
Period size: 43 Copynumber: 5.2 Consensus size: 43
16904259 TGTTTTGAGG
* * * *
16904269 TATGTTCTTTAGCGGCCTTCGTGGGGAAAGCACCACTAAAGGT
1 TATGTTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGT
* *
16904312 TATGTTCTTTAGCGGCGTTCGTGGGAAAAGCGCCGCTAAAGGT
1 TATGTTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGT
* * * *
16904355 CATGTTCTTTAGCGGAGTTTATGAGGAAAGCGCCGCTAAAGGT
1 TATGTTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGT
* * * *
16904398 CT-TGTTCTTTAGCAGCGTTTGTGGGAAAAGCGCCACTAAAAGT
1 -TATGTTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGT
** * * *
16904441 TATGTTCTCAATCGACATTTGTGGGGAAAGCGCCGCTAAAGGT
1 TATGTTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGT
16904484 TATGTTCT
1 TATGTTCT
16904492 ATAGTGGTGT
Statistics
Matches: 151, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
42 1 0.01
43 150 0.99
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
TATGTTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGT
Found at i:16910220 original size:15 final size:17
Alignment explanation
Indices: 16910167--16910217 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 17
16910157 TATTTTGAAA
16910167 TTAAAAATATATTAATTT
1 TTAAAAATATA-TAATTT
* *
16910185 TTAAAAA-ATGTGATTT
1 TTAAAAATATATAATTT
16910201 TTAAAAATATAT-ATTT
1 TTAAAAATATATAATTT
16910217 T
1 T
16910218 AAAGATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 17 0.59
17 5 0.17
18 7 0.24
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (17 bp):
TTAAAAATATATAATTT
Found at i:16910345 original size:13 final size:12
Alignment explanation
Indices: 16910327--16910385 Score: 59
Period size: 12 Copynumber: 4.8 Consensus size: 12
16910317 GCATGATTAA
16910327 ATAATTCAATAAT
1 ATAATT-AATAAT
16910340 ATAATTAAT-AT
1 ATAATTAATAAT
* *
16910351 AAAATATGA-AAT
1 ATAAT-TAATAAT
16910363 ATAATTCAATAAT
1 ATAATT-AATAAT
16910376 ATAATTAATA
1 ATAATTAATA
16910386 GACATAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
11 7 0.18
12 16 0.42
13 15 0.39
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (12 bp):
ATAATTAATAAT
Found at i:16914517 original size:30 final size:31
Alignment explanation
Indices: 16914481--16914541 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
16914471 AAACTTTTTA
*
16914481 TTTTCCCCTAAAATTTTTACTCCC-TCCCAT
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCAT
*
16914511 TTTTCCCCTAAAACTTTTATTCCCTTCCCAT
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCAT
16914542 CCCACCTCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 22 0.79
31 6 0.21
ACGTcount: A:0.20, C:0.36, G:0.00, T:0.44
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAT
Found at i:16917398 original size:13 final size:13
Alignment explanation
Indices: 16917380--16917405 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16917370 CAAAACAATC
16917380 CTTAAAGCTTTCT
1 CTTAAAGCTTTCT
16917393 CTTAAAGCTTTCT
1 CTTAAAGCTTTCT
16917406 AAAACTCTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (13 bp):
CTTAAAGCTTTCT
Found at i:16917851 original size:16 final size:16
Alignment explanation
Indices: 16917832--16917862 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16917822 ATATTAATGC
*
16917832 TATTTAATTTTAAAAA
1 TATTTAATATTAAAAA
16917848 TATTTAATATTAAAA
1 TATTTAATATTAAAA
16917863 TAATACAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTTAATATTAAAAA
Found at i:16917979 original size:28 final size:29
Alignment explanation
Indices: 16917948--16918012 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 29
16917938 TTATAAGTTA
*
16917948 TTTATTTTATATATTGTTAA-A-TAAATTT
1 TTTATTTTA-AAATTGTTAATATTAAATTT
* *
16917976 TTTAATATTAAAATTGTTAATATTCAATTT
1 TTT-ATTTTAAAATTGTTAATATTAAATTT
16918006 TTTATTT
1 TTTATTT
16918013 ATCTTTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
28 12 0.40
29 9 0.30
30 9 0.30
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (29 bp):
TTTATTTTAAAATTGTTAATATTAAATTT
Found at i:16918670 original size:16 final size:17
Alignment explanation
Indices: 16918614--16918678 Score: 62
Period size: 16 Copynumber: 3.9 Consensus size: 17
16918604 TTACTCCTGA
16918614 AAAAACTACCCACTCTT
1 AAAAACTACCCACTCTT
* **
16918631 AGAAAACAACCCACTAAT
1 A-AAAACTACCCACTCTT
*
16918649 ATAAA-TACCCACTCTT
1 AAAAACTACCCACTCTT
*
16918665 AAAAA-TACCAACTC
1 AAAAACTACCCACTC
16918679 ACAAATATAT
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
16 20 0.53
17 4 0.11
18 14 0.37
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAAACTACCCACTCTT
Found at i:16924130 original size:26 final size:26
Alignment explanation
Indices: 16924070--16924130 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
16924060 CAAATATTAA
16924070 ATTATTTATATAATTTTATTATATATT
1 ATTATTT-TATAATTTTATTATATATT
*
16924097 A-TAGTTTTA-AATTTTATTTATTTATT
1 ATTA-TTTTATAATTTTA-TTATATATT
16924123 ATTATTTT
1 ATTATTTT
16924131 TAGTGGTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
25 7 0.23
26 17 0.57
27 6 0.20
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (26 bp):
ATTATTTTATAATTTTATTATATATT
Found at i:16924816 original size:132 final size:129
Alignment explanation
Indices: 16924606--16924864 Score: 371
Period size: 132 Copynumber: 2.0 Consensus size: 129
16924596 AAATACTATA
* * *
16924606 ATTGAGAAAGTGAAAACAAAATAATATAAATTTTAAAATTTTAAAATCTTTATACCTAGTATTAT
1 ATTGAGAAAGTAAAAACAAAATAAAATAAATTTT-AAATTTTAAAATATTTATACCTAGTATTAT
** *
16924671 CATTAATATAAGTTAAGAATAAAAAATTAATCTTTAAAATAAAT-TTGAATTAATTACTTTTTGT
65 CACCAATATAAGTTAAGAA-AAAAAA-TAATATTTAAAAT-AATCTTGAATTAATTACTTTTTGT
16924735 ATG
127 ATG
*
16924738 ATTGAGAAAGTAAAAATAAAATAAAATAAATATTT-AATTTTAAAAATATTTATACCTTA-TATT
1 ATTGAGAAAGTAAAAACAAAATAAAATAAAT-TTTAAATTTT-AAAATATTTATACC-TAGTATT
16924801 ATCACCAATATAAGTTAAGAAAAAAAATAATATTTAAAATAATCTTGAATTAATTACTTTTTGT
63 ATCACCAATATAAGTTAAGAAAAAAAATAATATTTAAAATAATCTTGAATTAATTACTTTTTGT
16924865 GACAATATAT
Statistics
Matches: 116, Mismatches: 7, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
129 3 0.03
130 32 0.28
131 12 0.10
132 64 0.55
133 5 0.04
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (129 bp):
ATTGAGAAAGTAAAAACAAAATAAAATAAATTTTAAATTTTAAAATATTTATACCTAGTATTATC
ACCAATATAAGTTAAGAAAAAAAATAATATTTAAAATAATCTTGAATTAATTACTTTTTGTATG
Found at i:16925545 original size:185 final size:185
Alignment explanation
Indices: 16925233--16925606 Score: 604
Period size: 185 Copynumber: 2.0 Consensus size: 185
16925223 ATAAGTTAAT
* *
16925233 TTCAATCAATTAATAACAGCAATGAGCCTAGTGGTTCAATGATTAAGCTTCTATGTACTCTTTGG
1 TTCAATCAATTAATAACAACAATGAGCCTAATGGTTCAATGATTAAGCTTCTATGTACTCTTTGG
* * * * * *
16925298 TTTGGTGTTCAAATCCTTATGAAAGTAATAGGGAAATGTTTTATTTTGAATTGTTTTGTGTGGTA
66 TTTGGTATTCAAATCCCTATGAAAGCAATAAGGAAACGTTTTATTTTGAATTGCTTTGTGTGGTA
* *
16925363 GTTTATTTTTTTTGGTTAATTAAACTTCCTAGGAACCTCCTATTTTTATTCCATA
131 GTTTATTTTTTTTGGTTAATTAAACTTCCCAGGAACCTCCTATGTTTATTCCATA
* *
16925418 TTCAATCAATTAATGACAACAATGAGCCTAATGGTTCAATGATTAAGCTTTTATGTACTCTTTGG
1 TTCAATCAATTAATAACAACAATGAGCCTAATGGTTCAATGATTAAGCTTCTATGTACTCTTTGG
**
16925483 TTTGGTATTTGAATCCCTATGAAAGCAATAAGGAAACGTTTTATTTTGAATTGCTTTGTGTGGTA
66 TTTGGTATTCAAATCCCTATGAAAGCAATAAGGAAACGTTTTATTTTGAATTGCTTTGTGTGGTA
* *
16925548 GTTTATTTTTTTTGGTTAATTAAACTTCCCAGGAACCTCCTGTGTTTATTCTATA
131 GTTTATTTTTTTTGGTTAATTAAACTTCCCAGGAACCTCCTATGTTTATTCCATA
16925603 TTCA
1 TTCA
16925607 TTTTCCATTT
Statistics
Matches: 173, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
185 173 1.00
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (185 bp):
TTCAATCAATTAATAACAACAATGAGCCTAATGGTTCAATGATTAAGCTTCTATGTACTCTTTGG
TTTGGTATTCAAATCCCTATGAAAGCAATAAGGAAACGTTTTATTTTGAATTGCTTTGTGTGGTA
GTTTATTTTTTTTGGTTAATTAAACTTCCCAGGAACCTCCTATGTTTATTCCATA
Found at i:16933124 original size:20 final size:20
Alignment explanation
Indices: 16933099--16933158 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
16933089 ATTTTAAAAT
16933099 CAAGTTAAAATAATTTTAAC
1 CAAGTTAAAATAATTTTAAC
* *
16933119 CAAGTTAAAATGATTTCAAC
1 CAAGTTAAAATAATTTTAAC
*
16933139 CAAGTTAAAATCATTTTAAC
1 CAAGTTAAAATAATTTTAAC
16933159 TCATCAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (20 bp):
CAAGTTAAAATAATTTTAAC
Found at i:16933155 original size:40 final size:40
Alignment explanation
Indices: 16933089--16933185 Score: 117
Period size: 40 Copynumber: 2.4 Consensus size: 40
16933079 TTTTGAAACA
* *
16933089 ATTTTAAAATCAAGTTAAAATAATTTTAAC-CAAGTTAAAATG
1 ATTTTCAAA-CAAGTTAAAATAATTTTAACTC-A-TCAAAATG
* *
16933131 A-TTTCAACCAAGTTAAAATCATTTTAACTCATCAAAATG
1 ATTTTCAAACAAGTTAAAATAATTTTAACTCATCAAAATG
16933170 ATTTTCAAACAAGTTA
1 ATTTTCAAACAAGTTA
16933186 GAATTGCTCT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
39 8 0.17
40 33 0.69
41 6 0.12
42 1 0.02
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.35
Consensus pattern (40 bp):
ATTTTCAAACAAGTTAAAATAATTTTAACTCATCAAAATG
Found at i:16936365 original size:21 final size:22
Alignment explanation
Indices: 16936318--16936367 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
16936308 ACGTTTACTT
*
16936318 TTGTTT-TTTTTCCCCACATTA
1 TTGTTTCTTTTTCCCCACAATA
*
16936339 TT-TTTCTTTTT-CCTACAATA
1 TTGTTTCTTTTTCCCCACAATA
16936359 TTGTTTCTT
1 TTGTTTCTT
16936368 ATTCTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.14, C:0.20, G:0.04, T:0.62
Consensus pattern (22 bp):
TTGTTTCTTTTTCCCCACAATA
Found at i:16936476 original size:413 final size:406
Alignment explanation
Indices: 16935688--16936509 Score: 1308
Period size: 413 Copynumber: 2.0 Consensus size: 406
16935678 AGTATGAGTA
* **
16935688 GCTTGGATTATTTTATTTTGTTAATTGTTGGACTGTGCTGTAGAGGAAGTTGGGTTTGTTTAAAA
1 GCTTGGATTATATTATTTTGTTAATTGTTGGACAATGCTGTAGAGGAAGTTGGGTTTGTTTAAAA
16935753 CTATAGGAAGTGATGGGATAAAGATGGGAGTTAGTGGGTAGTGATTGGTTAGGATTTGTTTTTAC
66 CTATAGGAAGTGATGGGATAAAGATGGGAGTTAGTGGGTAGTGATTGGTTAGGATTTGTTTTTAC
16935818 TATTTTATTTTTTTGTTATTCTATTATTTCTTTTGTTTGAAAAAAAAGAGAGTTAATATACCAAA
131 TA--TTATTTTTTTGTTATTCTATTATTTCTTTTGTTTGAAAAAAAAGAGAGTTAATATACCAAA
16935883 ATCCCTCCCCTTTTGCACATTTACTTTTGTTTTTTTCCCCATATTATTTTTTTCCCACAATATTG
194 ATCCCTCCCCTTTTGCACATTTACTTTTGTTTTTTTCCCCATATTATTTTTTTCCCACAATATTG
* *
16935948 TTTCTGCTTCTTTTTTTTTACGTGAGATGGGTAACAAAAATTGTTCTTTTAGATTTTTGATCTTT
259 TTTCTGATTCTTTTTTTTTACGTGAGATGGGTAACAAAAAATGTTCTTTTAGATTTTTGATCTTT
* *
16936013 AGTGCATTACTTTTGTTGTCCTTGTTATTCAAGCACGATAGTGATGTTCGATTGTGTAAGTTTTG
324 AGTGCATTACTTTCGTTGTCCTTGTTATTCAAGCACGACAGTGATGTTCGATTGTGTAAGTTTTG
16936078 TCTCATTATCTTGTGTTG
389 TCTCATTATCTTGTGTTG
16936096 GCTTGGATTATATTATTTTGTTAGTAGTCTTGTTGGACAATGCTGTAGAGGAAGTTGGGTTTGTT
1 GCTTGGATTATATTATTTTGTTA--A---TTGTTGGACAATGCTGTAGAGGAAGTTGGGTTTGTT
*
16936161 TAAAACTATAGGAAGTGATGGGATAAAGATGGGAGTTAGTGGGTAGTGGTTGGTTAGGATTTGTT
61 TAAAACTATAGGAAGTGATGGGATAAAGATGGGAGTTAGTGGGTAGTGATTGGTTAGGATTTGTT
*
16936226 TTTACTA-T-TTTTTTTGTTATTCTATTATTTCTTTTGTTTGAAAAAAAAGGGAGTTAATATACC
126 TTTACTATTATTTTTTTGTTATTCTATTATTTCTTTTGTTTGAAAAAAAAGAGAGTTAATATACC
* * * *
16936289 AAAATCCCTCCCTTTTTGCACGTTTACTTTTGTTTTTTTTCCCCACATTATTTTTCTTTTTCCTA
191 AAAATCCCTCCCCTTTTGCACATTTACTTTTG-TTTTTTT-CCC-CA-TATTATT-TTTTTCCCA
* * * *
16936354 CAATATTGTTTCTTATTC-TTTTTTTTATGTGAGATGGGTAGCAAAAAATGTTCTTTTGGATTTT
251 CAATATTGTTTCTGATTCTTTTTTTTTACGTGAGATGGGTAACAAAAAATGTTCTTTTAGATTTT
* ** *
16936418 TGATCTTTAGTGCATTACTTTCGTTGTCCTTGTTATTGAAGTGCGACAGTGGTGTTCGATTGTGT
316 TGATCTTTAGTGCATTACTTTCGTTGTCCTTGTTATTCAAGCACGACAGTGATGTTCGATTGTGT
* *
16936483 AGGTTTTGTCTCCTTATCTTGTGTTG
381 AAGTTTTGTCTCATTATCTTGTGTTG
16936509 G
1 G
16936510 AATTTTGCTT
Statistics
Matches: 381, Mismatches: 23, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
408 22 0.06
409 84 0.22
410 9 0.02
411 3 0.01
412 2 0.01
413 237 0.62
414 24 0.06
ACGTcount: A:0.22, C:0.11, G:0.20, T:0.47
Consensus pattern (406 bp):
GCTTGGATTATATTATTTTGTTAATTGTTGGACAATGCTGTAGAGGAAGTTGGGTTTGTTTAAAA
CTATAGGAAGTGATGGGATAAAGATGGGAGTTAGTGGGTAGTGATTGGTTAGGATTTGTTTTTAC
TATTATTTTTTTGTTATTCTATTATTTCTTTTGTTTGAAAAAAAAGAGAGTTAATATACCAAAAT
CCCTCCCCTTTTGCACATTTACTTTTGTTTTTTTCCCCATATTATTTTTTTCCCACAATATTGTT
TCTGATTCTTTTTTTTTACGTGAGATGGGTAACAAAAAATGTTCTTTTAGATTTTTGATCTTTAG
TGCATTACTTTCGTTGTCCTTGTTATTCAAGCACGACAGTGATGTTCGATTGTGTAAGTTTTGTC
TCATTATCTTGTGTTG
Found at i:16947486 original size:41 final size:41
Alignment explanation
Indices: 16947441--16947563 Score: 237
Period size: 41 Copynumber: 3.0 Consensus size: 41
16947431 AAGAAAAGAC
16947441 AAAGATTTATTAATAATTCAAATTTATGTTGATGATATTAT
1 AAAGATTTATTAATAATTCAAATTTATGTTGATGATATTAT
*
16947482 AAAGATTTATTAATAATTCAAATATATGTTGATGATATTAT
1 AAAGATTTATTAATAATTCAAATTTATGTTGATGATATTAT
16947523 AAAGATTTATTAATAATTCAAATTTATGTTGATGATATTAT
1 AAAGATTTATTAATAATTCAAATTTATGTTGATGATATTAT
16947564 TTTTGGTTCT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 80 1.00
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (41 bp):
AAAGATTTATTAATAATTCAAATTTATGTTGATGATATTAT
Found at i:16951168 original size:20 final size:20
Alignment explanation
Indices: 16951143--16951229 Score: 90
Period size: 20 Copynumber: 4.3 Consensus size: 20
16951133 ATTTTAAAAT
16951143 CAAGTCAAAATGATTTTAAC
1 CAAGTCAAAATGATTTTAAC
*
16951163 CAAGTCAAAATGATTTCAAC
1 CAAGTCAAAATGATTTTAAC
*
16951183 CAAGTTAAAATCG-TTTTAA-
1 CAAGTCAAAAT-GATTTTAAC
* *
16951202 CACA-TCAAAAAGATTTTCAAA
1 CA-AGTCAAAATGATTTT-AAC
16951223 CAAGTCA
1 CAAGTCA
16951230 GAATTGCTCC
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
18 1 0.02
19 11 0.20
20 38 0.68
21 6 0.11
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.28
Consensus pattern (20 bp):
CAAGTCAAAATGATTTTAAC
Found at i:16951200 original size:40 final size:40
Alignment explanation
Indices: 16951127--16951229 Score: 104
Period size: 40 Copynumber: 2.5 Consensus size: 40
16951117 AGAAAATTTT
*
16951127 AAAAGAATTTTAAAATCAAGTCAAAATGATTTTAAC-CAAGTCA
1 AAAAG-ATTTTCAAA-CAAGTCAAAATGATTTTAACAC-A-TCA
* * *
16951170 AAATGA-TTTCAACCAAGTTAAAATCG-TTTTAACACATCA
1 AAAAGATTTTCAAACAAGTCAAAAT-GATTTTAACACATCA
16951209 AAAAGATTTTCAAACAAGTCA
1 AAAAGATTTTCAAACAAGTCA
16951230 GAATTGCTCC
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
39 8 0.16
40 30 0.60
41 7 0.14
42 1 0.02
43 4 0.08
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.28
Consensus pattern (40 bp):
AAAAGATTTTCAAACAAGTCAAAATGATTTTAACACATCA
Found at i:16958984 original size:25 final size:27
Alignment explanation
Indices: 16958956--16959005 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
16958946 TTTAAGCATT
*
16958956 AAACAATA-AGTTAA-AACACTCATAA
1 AAACAACATAGTTAATAACACTCATAA
*
16958981 AAACAACATATTTAATAACACTCAT
1 AAACAACATAGTTAATAACACTCAT
16959006 GCACAAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 5 0.24
27 9 0.43
ACGTcount: A:0.56, C:0.18, G:0.02, T:0.24
Consensus pattern (27 bp):
AAACAACATAGTTAATAACACTCATAA
Found at i:16959185 original size:75 final size:75
Alignment explanation
Indices: 16959098--16959257 Score: 198
Period size: 75 Copynumber: 2.1 Consensus size: 75
16959088 TAATATGAAG
* * * *
16959098 AACACATAATGCAAGTAT-TAAAGGATGCTAGTGTATTAATGCAAAACATTAAACAATGATGCAT
1 AACACTTAATGCAAGTATCTAAA-GATGCAAATGTATTAATGCAAAACATTAAACAAAGATGCAT
*
16959162 TTAATGC-ACAA
65 TT-ATCCGACAA
* * * * *
16959173 GACACTTAATGCAAGTTTCTAAAGATGCAAATGTATTAATGTAAGACATTAATCAAAGATGCATT
1 AACACTTAATGCAAGTATCTAAAGATGCAAATGTATTAATGCAAAACATTAAACAAAGATGCATT
16959238 TATCCGACAA
66 TATCCGACAA
16959248 AACACTTAAT
1 AACACTTAAT
16959258 AATGCAAAAC
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
74 3 0.04
75 65 0.90
76 4 0.06
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (75 bp):
AACACTTAATGCAAGTATCTAAAGATGCAAATGTATTAATGCAAAACATTAAACAAAGATGCATT
TATCCGACAA
Found at i:16963952 original size:7 final size:6
Alignment explanation
Indices: 16963932--16963996 Score: 55
Period size: 6 Copynumber: 10.8 Consensus size: 6
16963922 TTTTGAACTC
* * *
16963932 TTTCTT TTTCTT TTTCATT TTTC-T TATCTT ATTCTT TTTC-- ATTCTT
1 TTTCTT TTTCTT TTTC-TT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
16963978 TTTCTCT TGTTCTT TTTCT
1 TTTCT-T T-TTCTT TTTCT
16963997 CTCGACTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
4 3 0.06
5 4 0.09
6 26 0.55
7 10 0.21
8 4 0.09
ACGTcount: A:0.06, C:0.18, G:0.02, T:0.74
Consensus pattern (6 bp):
TTTCTT
Found at i:16963961 original size:24 final size:24
Alignment explanation
Indices: 16963930--16963995 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
16963920 TTTTTTGAAC
*
16963930 TCTTTCTTTTTCTTTTTCATT-TT
1 TCTTTCTTATTCTTTTTCATTCTT
16963953 TCTTATCTTATTCTTTTTCATTCTT
1 TCTT-TCTTATTCTTTTTCATTCTT
*
16963978 T-TTCTCTTGTTCTTTTTC
1 TCTT-TCTTATTCTTTTTC
16963996 TCTCGACTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.11
24 31 0.82
25 3 0.08
ACGTcount: A:0.06, C:0.20, G:0.02, T:0.73
Consensus pattern (24 bp):
TCTTTCTTATTCTTTTTCATTCTT
Found at i:16965755 original size:38 final size:38
Alignment explanation
Indices: 16965713--16965790 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
16965703 TCCTTGGAAA
16965713 GAAGGAATAGTCATCTTGATGTTTTCCAAGTCATCATC
1 GAAGGAATAGTCATCTTGATGTTTTCCAAGTCATCATC
*
16965751 GAAGGAATAGTCATCTTGATGTTTTTCAAGTCATCATC
1 GAAGGAATAGTCATCTTGATGTTTTCCAAGTCATCATC
16965789 GA
1 GA
16965791 CTTGTTCTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (38 bp):
GAAGGAATAGTCATCTTGATGTTTTCCAAGTCATCATC
Found at i:16970113 original size:16 final size:16
Alignment explanation
Indices: 16970092--16970147 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
16970082 TATGAATCAA
* *
16970092 TTTTTTTAATTTTAAT
1 TTTTTTTACTTTAAAT
*
16970108 TTTTTTTGGACTTCAAAT
1 TTTTTTT--ACTTTAAAT
*
16970126 TTTTTTTACTTTGAAT
1 TTTTTTTACTTTAAAT
16970142 TTTTTT
1 TTTTTT
16970148 CATTTTTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 20 0.61
18 13 0.39
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (16 bp):
TTTTTTTACTTTAAAT
Found at i:16971157 original size:25 final size:27
Alignment explanation
Indices: 16971129--16971178 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
16971119 TTTAAGCATT
*
16971129 AAATAATA-ACTTAA-AACACTCATAA
1 AAATAACATACTTAATAACACTCATAA
*
16971154 AAATAACATATTTAATAACACTCAT
1 AAATAACATACTTAATAACACTCAT
16971179 GCACAAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 5 0.24
27 9 0.43
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (27 bp):
AAATAACATACTTAATAACACTCATAA
Found at i:16972139 original size:71 final size:71
Alignment explanation
Indices: 16972044--16973171 Score: 413
Period size: 71 Copynumber: 15.5 Consensus size: 71
16972034 TCCAATACCG
* * * * * * * *
16972044 CAGCCTCTAACATAGTTAGCGAGAGTTACAAACTCCTAAATGTCATATTAAGGCTCGGATGATTA
1 CAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCTAACTGTCACATTAAGGCTCGTAGGATCA
16972109 AAACCA
66 AAACCA
* * ** * *
16972115 CAGCCTCCAACACAATTAGTGAGAGTTACAAACTTCTAGTTGTCACATTAAGGCTTGCAGGATCA
1 CAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCTAACTGTCACATTAAGGCTCGTAGGATCA
* *
16972180 AAATCG
66 AAACCA
* * * *
16972186 TAGCCTCCAATACAATTAGCGAGAGTTACAAACTCCCAACTGTCACATTAAGGCTCGTAAGATCA
1 CAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCTAACTGTCACATTAAGGCTCGTAGGATCA
*
16972251 AAATCA
66 AAACCA
** * * * * *
16972257 TTGACTCCAACACAGTTAGCGAGAGTGACAAACT-TTCAACTGTCACATTAAGGCTCGTAGGATT
1 CAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCT-AACTGTCACATTAAGGCTCGTAGGATC
**
16972321 AAAACTG
65 AAAACCA
* * * * * *
16972328 CAGCCTTCAACACAATTAGCGAGAGTTACAAACTCCCAGCTATCATATTAAGGCTC-TCAATTG-
1 CAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCTAACTGTCACATTAAGGCTCGT--A-GGA
**
16972391 TCATATTAAGGCTTG
63 TCA-A--AA--C-CA
** ** * * * * * * ** * * *
16972406 CAGTATTAAAACCGCAACCTCTAAC-ACAGTTAGAGAGAGCTACAAACTCCCA-AGT--GTCATA
1 CAG-CCTCCAA-CACAA--T-TAGCGAGAGTTACA-A-A-CTCCTAACTGTCACATTAAGGC-TC
* * * * *
16972467 TTAAGAGTTTAAAATCG
57 GT-AG-GATCAAAACCA
* * * * * * *
16972484 CAGCCTCCAACACAGTTAGCGACAGTTACAAACTCCCAGCTATCATATTAAGGCTCGTGGGATCA
1 CAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCTAACTGTCACATTAAGGCTCGTAGGATCA
16972549 AAACCA
66 AAACCA
* * ** ** ** * * **
16972555 CAACCTCTAACACAGCTAGCGATTGTTGTAAATTCCCAACTGTCACATTAAGGCTCACAGGATCA
1 CAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCTAACTGTCACATTAAGGCTCGTAGGATCA
* *
16972620 AAATCG
66 AAACCA
* * * * * * * * * *
16972626 CAGCCTCCAACACAGTTAGCAAAATTTACAAACTCCCAACTATCATATTATGGCTCATAGGATTA
1 CAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCTAACTGTCACATTAAGGCTCGTAGGATCA
* *
16972691 AAATCG
66 AAACCA
* * * * * * *
16972697 CAGCCTCCAACATAATTAGCAAGACTTACAAACTCCCAACTATCATATTAAGGCTCGCAGGATCA
1 CAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCTAACTGTCACATTAAGGCTCGTAGGATCA
* *
16972762 AAATCG
66 AAACCA
* * * * * *
16972768 CATCCTCCAACACAATTAGCGAGAGTTACAAACTCCCAACTATCATATTAAGGCTCGCAGGATTA
1 CAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCTAACTGTCACATTAAGGCTCGTAGGATCA
* *
16972833 AATCCG
66 AAACCA
* * * * * * * * * * * * *
16972839 CAACCTCTAAAATAGTTAGCGAGAGTTACAAACTCCCAACTATCATAATAAAGCTTGCAGGATTA
1 CAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCTAACTGTCACATTAAGGCTCGTAGGATCA
* *
16972904 AAATCG
66 AAACCA
* * * * * * * ** * ** *
16972910 TAGCCTCCAATAGAGTTAGCAAGAGATACAAACTCCCAGTTGTCATATTAAGGCTCCCAATTG-T
1 CAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCTAACTGTCACATTAAGGCT-CGTA-GGAT
16972974 CATATTAAGGCTCA
64 CA-A--AA--C-CA
** * * ** * * * ** * * *
16972988 CAGGAT-TAAAATTGCAACCTCTA-AAACAGTTGCAAACTCTTAGTTGTTACATTCAGGCTCGCA
1 CAGCCTCCAACA---CAA--T-TAGCGAGAGTTACAAACTCCTAACTGTCACATTAAGGCTCGTA
16973051 GGATCAAAACCA
60 GGATCAAAACCA
** * * *
16973063 CAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCTAGTTGTCATATTAAGGCTCGCAAGATCA
1 CAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCTAACTGTCACATTAAGGCTCGTAGGATCA
**
16973128 AAACTG
66 AAACCA
* * * * *
16973134 TAGCCTCTAACATAGTTAGCGAGAGTTGCAAACTCCTA
1 CAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCTA
16973172 GTTGTTACAT
Statistics
Matches: 807, Mismatches: 206, Indels: 88
0.73 0.19 0.08
Matches are distributed among these distances:
70 3 0.00
71 651 0.81
72 10 0.01
73 13 0.02
74 11 0.01
75 10 0.01
76 7 0.01
77 7 0.01
78 15 0.02
79 3 0.00
80 7 0.01
81 7 0.01
82 38 0.05
83 11 0.01
84 6 0.01
85 8 0.01
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (71 bp):
CAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCTAACTGTCACATTAAGGCTCGTAGGATCA
AAACCA
Found at i:16972281 original size:142 final size:142
Alignment explanation
Indices: 16972043--16972965 Score: 458
Period size: 142 Copynumber: 6.4 Consensus size: 142
16972033 GTCCAATACC
* * * * * * *
16972043 GCAGCCTCTAACATAGTTAGCGAGAGTTACAAACTCCTAAATGTCATATTAAGGCTCGGATGATT
1 GCAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCCAACTGTCATATTAAGGCTCGGAAGATC
* * * ** *
16972108 AAAACCACAGCCTCCAACACAATTAGTGAGAGTTACAAAC-TTCTAGTTGTCACATTAAGGCTTG
66 AAAACCACAGACTCCAACACAATTAGCGAGAGTGACAAACTTTC-AACTGTCACATTAAGGCTCG
16972172 CAGGATCAAAA-T
130 CAGGATCAAAACT
* * * *
16972184 CGTAGCCTCCAATACAATTAGCGAGAGTTACAAACTCCCAACTGTCACATTAAGGCTCGTAAGAT
1 -GCAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCCAACTGTCATATTAAGGCTCGGAAGAT
* ** *
16972249 CAAAATCATTGACTCCAACACAGTTAGCGAGAGTGACAAACTTTCAACTGTCACATTAAGGCTCG
65 CAAAACCACAGACTCCAACACAATTAGCGAGAGTGACAAACTTTCAACTGTCACATTAAGGCTCG
* *
16972314 TAGGATTAAAACT
130 CAGGATCAAAACT
* * * **
16972327 GCAGCCTTCAACACAATTAGCGAGAGTTACAAACTCCCAGCTATCATATTAAGGCTCTCAATTG-
1 GCAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCCAACTGTCATATTAAGGCTCGGAA--GA
** * ** * * * * * *
16972391 TCATATTAAGGCTTGCAGTATTAAAACCGCAACCTCTAAC-ACAGTTAGAGAGAGC-TACAAACT
64 TCA-A--AA--C-CACAG-ACTCCAA-CACAA--T-TAGCGAGAG-T-GACA-AACTTTC-AACT
** * * *** * *
16972454 CCCA-AGT--GTCATATTAAGAGTTTAAAA-T
114 GTCACATTAAGGC-T-CGCAG-GATCAAAACT
* * * * *
16972482 CGCAGCCTCCAACACAGTTAGCGACAGTTACAAACTCCCAGCTATCATATTAAGGCTCGTG-GGA
1 -GCAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCCAACTGTCATATTAAGGCTCG-GAAGA
* ** ** * *
16972546 TCAAAACCACA-ACCTCTAACACAGCTAGCGATTGTTG-TAAA-TTCCCAACTGTCACATTAAGG
64 TCAAAACCACAGA-CTCCAACACAATTAGCGAGAG-TGACAAACTT-TCAACTGTCACATTAAGG
*
16972608 CTCACAGGATCAAAA-T
126 CTCGCAGGATCAAAACT
* * * * * * ** *
16972624 CGCAGCCTCCAACACAGTTAGCAAAATTTACAAACTCCCAACTATCATATTATGGCTCATAGGAT
1 -GCAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCCAACTGTCATATTAAGGCTCGGAAGAT
* * * * * * * * ** * *
16972689 TAAAATCGCAGCCTCCAACATAATTAGCAAGACTTACAAACTCCCAACTATCATATTAAGGCTCG
65 CAAAACCACAGACTCCAACACAATTAGCGAGAGTGACAAACTTTCAACTGTCACATTAAGGCTCG
16972754 CAGGATCAAAA-T
130 CAGGATCAAAACT
* * * *
16972766 CGCATCCTCCAACACAATTAGCGAGAGTTACAAACTCCCAACTATCATATTAAGGCTCGCAGGAT
1 -GCAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCCAACTGTCATATTAAGGCTCGGAAGAT
* * * * * * * * ** * * * * *
16972831 TAAATCCGCA-ACCTCTAAAATAGTTAGCGAGAGTTACAAACTCCCAACTATCATAATAAAGCTT
65 CAAAACCACAGA-CTCCAACACAATTAGCGAGAGTGACAAACTTTCAACTGTCACATTAAGGCTC
*
16972895 GCAGGATTAAAA-T
129 GCAGGATCAAAACT
* * * * * * **
16972908 CGTAGCCTCCAATAGAGTTAGCAAGAGATACAAACTCCCAGTTGTCATATTAAGGCTC
1 -GCAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCCAACTGTCATATTAAGGCTC
16972966 CCAATTGTCA
Statistics
Matches: 606, Mismatches: 138, Indels: 74
0.74 0.17 0.09
Matches are distributed among these distances:
141 1 0.00
142 461 0.76
143 14 0.02
144 7 0.01
145 6 0.01
146 2 0.00
147 4 0.01
148 3 0.00
149 3 0.00
150 5 0.01
151 3 0.00
152 2 0.00
153 6 0.01
154 7 0.01
155 13 0.02
156 69 0.11
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (142 bp):
GCAGCCTCCAACACAATTAGCGAGAGTTACAAACTCCCAACTGTCATATTAAGGCTCGGAAGATC
AAAACCACAGACTCCAACACAATTAGCGAGAGTGACAAACTTTCAACTGTCACATTAAGGCTCGC
AGGATCAAAACT
Found at i:16972454 original size:92 final size:92
Alignment explanation
Indices: 16972292--16972471 Score: 229
Period size: 92 Copynumber: 2.0 Consensus size: 92
16972282 TGACAAACTT
* * * * *
16972292 TCAACTGTCACATTAAGGCTCGTAGGATTAAAACTGCAGCCTTCAACACAATTAGCGAGAGTTAC
1 TCAACTGTCACATTAAGGCTCGCAGGATTAAAACCGCAACCTTCAACACAATTAGAGAGAGCTAC
16972357 AAACTCCC-AGCTATCATATTAAGGCTC
66 AAACTCCCAAG-TATCATATTAAGGCTC
* * * * *
16972384 TCAATTGTCATATTAAGGCTTGCAGTATTAAAACCGCAACC-TCTAACACAGTTAGAGAGAGCTA
1 TCAACTGTCACATTAAGGCTCGCAGGATTAAAACCGCAACCTTC-AACACAATTAGAGAGAGCTA
*
16972448 CAAACTCCCAAGTGTCATATTAAG
65 CAAACTCCCAAGTATCATATTAAG
16972472 AGTTTAAAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
91 2 0.03
92 71 0.95
93 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (92 bp):
TCAACTGTCACATTAAGGCTCGCAGGATTAAAACCGCAACCTTCAACACAATTAGAGAGAGCTAC
AAACTCCCAAGTATCATATTAAGGCTC
Found at i:16972514 original size:64 final size:64
Alignment explanation
Indices: 16972411--16972535 Score: 171
Period size: 64 Copynumber: 2.0 Consensus size: 64
16972401 GCTTGCAGTA
* * *
16972411 TTAAAACCGCAACCTCTAACACAGTTAGAGAGAGCTACAAACTCCCAAG-TGTCATATTAAGAGT
1 TTAAAACCGCAACCTCCAACACAGTTAGAGACAGCTACAAACTCCC-AGCTATCATATTAAGAGT
* * * *
16972475 TTAAAATCGCAGCCTCCAACACAGTTAGCGACAGTTACAAACTCCCAGCTATCATATTAAG
1 TTAAAACCGCAACCTCCAACACAGTTAGAGACAGCTACAAACTCCCAGCTATCATATTAAG
16972536 GCTCGTGGGA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
63 2 0.04
64 51 0.96
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (64 bp):
TTAAAACCGCAACCTCCAACACAGTTAGAGACAGCTACAAACTCCCAGCTATCATATTAAGAGT
Found at i:16972762 original size:213 final size:213
Alignment explanation
Indices: 16972475--16972965 Score: 588
Period size: 213 Copynumber: 2.3 Consensus size: 213
16972465 TATTAAGAGT
* *
16972475 TTAAAATCGCAGCCTCCAACACAGTTAGCGACAGTTACAAACTCCCAGCTATCATATTAAGGCTC
1 TTAAAATCGCAGCCTCCAACACAGTTAGCAAGAGTTACAAACTCCCAGCTATCATATTAAGGCTC
** * * ** ** * *
16972540 GTGGGATCAAAACCACAACCTCTAACACAGCTAGCGATTGTTGTAAATTCCCAACTGTCACATTA
66 GCAGGATCAAAACCACAACCTCCAACACAACTAGCGAGAGTTACAAACTCCCAACTATCACATTA
* * *
16972605 AGGCTCACAGGATCAAAAT-CGCAGCCTCCAACACAGTTAGCAAAATTTACAAACTCCCAACTAT
131 AGGCTCACAGGAT-AAAATCCGCAACCTCCAAAACAGTTAGCAAAAGTTACAAACTCCCAACTAT
* ** *
16972669 CATATTATGGCTCATAGGA
195 CATAATAAAGCTCACAGGA
* * * *
16972688 TTAAAATCGCAGCCTCCAACATAATTAGCAAGACTTACAAACTCCCAACTATCATATTAAGGCTC
1 TTAAAATCGCAGCCTCCAACACAGTTAGCAAGAGTTACAAACTCCCAGCTATCATATTAAGGCTC
* * * * *
16972753 GCAGGATCAAAATCGCATCCTCCAACACAATTAGCGAGAGTTACAAACTCCCAACTATCATATTA
66 GCAGGATCAAAACCACAACCTCCAACACAACTAGCGAGAGTTACAAACTCCCAACTATCACATTA
* * * * * *
16972818 AGGCTCGCAGGATTAAATCCGCAACCTCTAAAATAGTTAGCGAGAGTTACAAACTCCCAACTATC
131 AGGCTCACAGGATAAAATCCGCAACCTCCAAAACAGTTAGCAAAAGTTACAAACTCCCAACTATC
**
16972883 ATAATAAAGCTTGCAGGA
196 ATAATAAAGCTCACAGGA
* * * * * *
16972901 TTAAAATCGTAGCCTCCAATAGAGTTAGCAAGAGATACAAACTCCCAGTTGTCATATTAAGGCTC
1 TTAAAATCGCAGCCTCCAACACAGTTAGCAAGAGTTACAAACTCCCAGCTATCATATTAAGGCTC
16972966 CCAATTGTCA
Statistics
Matches: 232, Mismatches: 45, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
212 4 0.02
213 228 0.98
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.23
Consensus pattern (213 bp):
TTAAAATCGCAGCCTCCAACACAGTTAGCAAGAGTTACAAACTCCCAGCTATCATATTAAGGCTC
GCAGGATCAAAACCACAACCTCCAACACAACTAGCGAGAGTTACAAACTCCCAACTATCACATTA
AGGCTCACAGGATAAAATCCGCAACCTCCAAAACAGTTAGCAAAAGTTACAAACTCCCAACTATC
ATAATAAAGCTCACAGGA
Found at i:16972966 original size:21 final size:21
Alignment explanation
Indices: 16972942--16972986 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
16972932 GAGATACAAA
*
16972942 CTCCCAGTTGTCATATTAAGG
1 CTCCCAATTGTCATATTAAGG
16972963 CTCCCAATTGTCATATTAAGG
1 CTCCCAATTGTCATATTAAGG
16972984 CTC
1 CTC
16972987 ACAGGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (21 bp):
CTCCCAATTGTCATATTAAGG
Found at i:16973228 original size:16 final size:16
Alignment explanation
Indices: 16973203--16973271 Score: 120
Period size: 16 Copynumber: 4.3 Consensus size: 16
16973193 TTGGTTCGCT
*
16973203 GTAATAGAATAGAGGC
1 GTAATGGAATAGAGGC
16973219 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
16973235 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
16973251 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
16973267 GTAAT
1 GTAAT
16973272 AGGTAATTCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:16973340 original size:44 final size:46
Alignment explanation
Indices: 16973251--16973341 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
16973241 GAATAGATGC
*
16973251 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
16973297 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
16973341 G
1 G
16973342 GAATAGAGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 20 0.45
45 3 0.07
46 21 0.48
ACGTcount: A:0.26, C:0.04, G:0.31, T:0.38
Consensus pattern (46 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:16973342 original size:39 final size:44
Alignment explanation
Indices: 16973251--16973358 Score: 145
Period size: 46 Copynumber: 2.5 Consensus size: 44
16973241 GAATAGATGC
*
16973251 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--AT
16973297 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
*
16973337 G-AATGGAATAGAGGTGTAATAG
1 GTAATGGAATAGAGGCGTAATAG
16973359 CATAAGGAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
39 18 0.31
40 3 0.05
43 1 0.02
44 13 0.22
45 3 0.05
46 21 0.36
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.36
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
Found at i:16973697 original size:109 final size:115
Alignment explanation
Indices: 16973486--16973744 Score: 316
Period size: 109 Copynumber: 2.2 Consensus size: 115
16973476 TTAATCATAT
* * *
16973486 TTTAACATAATTTTTATAAAATATAATTTAATAAAAATATATAATTTAATAAAATGATTAATAAA
1 TTTAAAATAATTATTATTAAATATAA-TTAATAAAAATATATAATTTAATAAAA-GATTAAT--A
*
16973551 TATTCTTAAATATGAATTTACTAATAAAATCATAATATATAACACTATAAAATATAA
62 TATTCTT-AATATGAATTTAC--ATAAAATCATAATATATAACAATATAAAATATAA
** *
16973608 TTTAAAATAATTATTATTAAATATAATTAATAATGATATATAATTTAAT-AAA-ATT-CT-TATT
1 TTTAAAATAATTATTATTAAATATAATTAATAAAAATATATAATTTAATAAAAGATTAATATATT
*
16973669 CTT-ATATGAATTTAC-TAAAATCATAATATATAATAATATAAAATATAA
66 CTTAATATGAATTTACATAAAATCATAATATATAACAATATAAAATATAA
*
16973717 TTT-AACTAATTATTATTAAATTATAATT
1 TTTAAAATAATTATTATTAAA-TATAATT
16973745 TGTAATCTAT
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
108 16 0.13
109 41 0.32
112 12 0.09
114 7 0.06
117 1 0.01
118 3 0.02
120 3 0.02
121 21 0.17
122 23 0.18
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (115 bp):
TTTAAAATAATTATTATTAAATATAATTAATAAAAATATATAATTTAATAAAAGATTAATATATT
CTTAATATGAATTTACATAAAATCATAATATATAACAATATAAAATATAA
Found at i:16975152 original size:49 final size:49
Alignment explanation
Indices: 16975080--16975183 Score: 147
Period size: 49 Copynumber: 2.1 Consensus size: 49
16975070 AAAAAAAAAC
* * * *
16975080 AAATTAAAATTAAGTTTAATATCATGAATCA-AAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCACAAA-CTCAACACTGTATA
*
16975129 AAATTAAAATTGAGTTCAATATCATGAATCACAAACTCAACACTGTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCACAAACTCAACACTGTATA
16975178 AAATTA
1 AAATTA
16975184 TAACCCATGA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
49 46 0.94
50 3 0.06
ACGTcount: A:0.49, C:0.12, G:0.09, T:0.31
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCACAAACTCAACACTGTATA
Found at i:16977718 original size:18 final size:19
Alignment explanation
Indices: 16977685--16977725 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
16977675 ATATATAAAA
16977685 ATACCAATAAAAATTATCCT
1 ATACCAAT-AAAATTATCCT
16977705 ATACCAAT-AAATTATCCT
1 ATACCAATAAAATTATCCT
16977723 ATA
1 ATA
16977726 AAGTCCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 13 0.62
20 8 0.38
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.32
Consensus pattern (19 bp):
ATACCAATAAAATTATCCT
Found at i:16977986 original size:10 final size:10
Alignment explanation
Indices: 16977971--16977995 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
16977961 CCTACAAAGG
16977971 AATCACAGTC
1 AATCACAGTC
16977981 AATCACAGTC
1 AATCACAGTC
16977991 AATCA
1 AATCA
16977996 GCCAATCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.28, G:0.08, T:0.20
Consensus pattern (10 bp):
AATCACAGTC
Found at i:16980307 original size:71 final size:70
Alignment explanation
Indices: 16979888--16980341 Score: 320
Period size: 71 Copynumber: 6.4 Consensus size: 70
16979878 AAACAAGCTA
* * ** * * * *
16979888 TAAGGCTCGTAGGATCAAAACCGTAGCCTCCAACACAATTAGCGAGAGTTGCAAACTCCCATCTA
1 TAAGGCTCGCAGGTTCAAAACCACAGCCTCCAACACAGTTAGCAAGAGTT-AAAACTCCCAGCTA
* *
16979953 TCACAT
65 TCAAAC
* ** ** * * * ** *
16979959 TAAGGCTCGCGGGACCAAAGTCGCAGCCTCCAACATAGTTAGCGAGAGTTACAAACTCCCAAATG
1 TAAGGCTCGCAGGTTCAAAACCACAGCCTCCAACACAGTTAGCAAGAGTTA-AAACTCCCAGCTA
* *
16980024 TCATAT
65 TCAAAC
* * * *
16980030 TAAGGCTTGCAGGATT-AAAACTACAGCCTCCAACACAATTAGCAAGAGTTACAAACTCCCAACT
1 TAAGGCTCGCAGG-TTCAAAACCACAGCCTCCAACACAGTTAGCAAGAGTTA-AAACTCCCAGCT
* *
16980094 ATCATAT
64 ATCAAAC
** * * * * * * * *
16980101 TAAGGCTCATAGGATCAAAACCACATCCTCAAACACAGTTAACGAGAGTTAAAAACTCCCCGTTG
1 TAAGGCTCGCAGGTTCAAAACCACAGCCTCCAACACAGTTAGCAAGAGTT-AAAACTCCCAGCTA
*
16980166 TTAAAC
65 TCAAAC
* ** * * * **
16980172 TAAGGATCTTAGGTTTAAAACCACAGCCTCTAACACAGTTAGTGAA-AGTTAAAAGCTCTTAGCT
1 TAAGGCTCGCAGGTTCAAAACCACAGCCTCCAACACAGTTAG-CAAGAGTTAAAA-CTCCCAGCT
*
16980236 ACCAAAC
64 ATCAAAC
* *
16980243 TAAGGCTAGCAGGTTCAAAACCGCAGCCTCCAACACAGTTAGCAAGAGTTAAAAGCTCCCAGCTA
1 TAAGGCTCGCAGGTTCAAAACCACAGCCTCCAACACAGTTAGCAAGAGTTAAAA-CTCCCAGCTA
16980308 TC-AAC
65 TCAAAC
* **
16980313 TTAAGGCTCGCAGGTCCAATGCCACAGCC
1 -TAAGGCTCGCAGGTTCAAAACCACAGCC
16980342 CTCAAATCCA
Statistics
Matches: 300, Mismatches: 75, Indels: 16
0.77 0.19 0.04
Matches are distributed among these distances:
70 10 0.03
71 288 0.96
72 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (70 bp):
TAAGGCTCGCAGGTTCAAAACCACAGCCTCCAACACAGTTAGCAAGAGTTAAAACTCCCAGCTAT
CAAAC
Found at i:16980501 original size:68 final size:68
Alignment explanation
Indices: 16980392--16980625 Score: 279
Period size: 68 Copynumber: 3.4 Consensus size: 68
16980382 GCCCAAGTAT
* * * ** *
16980392 AAAATAGCTCACGGGCCTACTTCCCAGCCAATATCCTAAAGGCTCGCCAATTTAATATTACGACC
1 AAAACAGCTCACGGACATACTTCCCAGCTGATATCCTAAAGGCTCGCCAATTTAATATCACGACC
16980457 TCC
66 TCC
* * * * * * ** *
16980460 AAAATAGCTCGCGGACATATTTCCCAGTTGATATTCTAAAGGCTCACCAATTTAATATCGTGATC
1 AAAACAGCTCACGGACATACTTCCCAGCTGATATCCTAAAGGCTCGCCAATTTAATATCACGACC
16980525 TCC
66 TCC
* * *
16980528 AAAACAGCTCACGGGCCTACTTCCCAGCTGATATCCTAAAGGCTCGCCAGTTTAATATCACGACC
1 AAAACAGCTCACGGACATACTTCCCAGCTGATATCCTAAAGGCTCGCCAATTTAATATCACGACC
16980593 TCC
66 TCC
* *
16980596 AAAACAGCTCACGGGCCTACGTTCCCAGCT
1 AAAACAGCTCACGGACATAC-TTCCCAGCT
16980626 CGTATTATAG
Statistics
Matches: 140, Mismatches: 25, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
68 131 0.94
69 9 0.06
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.24
Consensus pattern (68 bp):
AAAACAGCTCACGGACATACTTCCCAGCTGATATCCTAAAGGCTCGCCAATTTAATATCACGACC
TCC
Found at i:16989426 original size:20 final size:20
Alignment explanation
Indices: 16989377--16989426 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 20
16989367 GATTATTTAT
16989377 TTGATATCTGGTTTTCTCATC
1 TTGATAT-TGGTTTTCTCATC
16989398 TT-ATTTATTGGTTTT-TCATGC
1 TTGA--TATTGGTTTTCTCAT-C
16989419 TTGATATT
1 TTGATATT
16989427 TTAAATTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
20 9 0.36
21 12 0.48
22 4 0.16
ACGTcount: A:0.16, C:0.12, G:0.14, T:0.58
Consensus pattern (20 bp):
TTGATATTGGTTTTCTCATC
Found at i:16989488 original size:20 final size:21
Alignment explanation
Indices: 16989450--16989490 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
16989440 ACTTATTTTA
*
16989450 TTTTATTTTATATAAATATTT
1 TTTTATTTTATACAAATATTT
*
16989471 TTTTA-TTTATACATATATTT
1 TTTTATTTTATACAAATATTT
16989491 GTTTGCTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTATTTTATACAAATATTT
Found at i:16989563 original size:502 final size:501
Alignment explanation
Indices: 16988598--16989593 Score: 1704
Period size: 502 Copynumber: 2.0 Consensus size: 501
16988588 AAGAATTCTT
**
16988598 CAGAATATTTTACACTGAGAGACTCTCTAAAACCGAGTTTATTTTGCTCTCGAAAATTCTTCTCT
1 CAGAATATTTTACACTGAGAGACTCTCTAAAACCGAGTTTATTTTGCTCTAAAAAATTCTTCTCT
* * * *
16988663 TTTTCTCTCAATATTTTTCAATGTTTCGGTGATAGAAAAAGGCAAGGTTTGTTCATTAATCTTTG
66 TTTTCTCTCAATATTTTCCAATGTTCCAGTGATAGAAAAAGGCAAGGTTTGTTCATTAATCTCTG
* * *
16988728 CAGAGTTGCTACTGCTTCGATCATCGTGTTGTTGTATCCTGGGAGACAGTCGACCAACGTTTCTC
131 CAAAGGTGCTACTGCTTCGATCATCGTGTTGTTGTATCCTGGGAGACAATCGACCAACGTTTCTC
* *
16988793 CAAGTACCATAGGAGTGGCCAAATCTATCTTAAAGAAACTGTGTAAATAAGCCTCAACATCTAGT
196 CAAGTACCATAGGAGCGGCCAAATCTATCTTAAAGAAAATGTGTAAATAAGCCTCAACATCTAGT
*
16988858 AAAATTCGATTCTTTATTTGATATCTGGTTTTCTAATCTTATTTATTGGTTTTTCATACTTGATA
261 AAAATTCGATTATTTATTTGATATCTGGTTTTCTAATCTTATTTATTGGTTTTTCATACTTGATA
** *
16988923 TTTTAAATACAAATTTTTTATTTTATTTTATTTTATATAAATAGTTTTTTATTTGTACATATATT
326 TTTTAAATACAAATTACTTATTTTATTTTATTTTATATAAATAGTTTTTTATTTATACATATATT
* *
16988988 TGTTTGCTAACGTGTTATTTGTCTAACAATCTTAAGACAGATTTTATTATTTTGCAATTCTCTAA
391 TGTTTGCTAACGTGTTATTTGTCCAACAATCTTAAGACAAATTTTATTATTTTGCAATTCTCTAA
* * *
16989053 TTCGAGACGAACGAGACACTAAGGCGAAAGAAAGAAAAATCCAAGA
456 TCCGAGACGAACGAGACACCAAGGCAAAAGAAAGAAAAATCCAAGA
*
16989099 CAGAATTTTTTACACTGAGAGACTCTCTAAAACCGAGTTTATTTTGCTCTAAAAAATTCTTCTCT
1 CAGAATATTTTACACTGAGAGACTCTCTAAAACCGAGTTTATTTTGCTCTAAAAAATTCTTCTCT
16989164 TTTTCTCTCAATATTTTCCAATGTTCCAGTGATAGAAAAAGGCAAGGTTTGTTCATTAATCTCTG
66 TTTTCTCTCAATATTTTCCAATGTTCCAGTGATAGAAAAAGGCAAGGTTTGTTCATTAATCTCTG
*
16989229 CAAAGGTGCTGCTGCTTCGATCATCGTGTTGTTGTATCCTGGGAGACAATCGACCAACGTTTCTC
131 CAAAGGTGCTACTGCTTCGATCATCGTGTTGTTGTATCCTGGGAGACAATCGACCAACGTTTCTC
* * *
16989294 CAAGTACCGTAGGAGCGGCCAAATTTGTCTTAAAGAAAATGTGTAAAATAAGCCTCAACATCTAG
196 CAAGTACCATAGGAGCGGCCAAATCTATCTTAAAGAAAATGTGT-AAATAAGCCTCAACATCTAG
* *
16989359 TAAAATTCGATTATTTATTTGATATCTGGTTTTCTCATCTTATTTATTGGTTTTTCATGCTTGAT
260 TAAAATTCGATTATTTATTTGATATCTGGTTTTCTAATCTTATTTATTGGTTTTTCATACTTGAT
* *
16989424 ATTTTAAATTCAAATTACTTATTTTATTTTATTTTATATAAATATTTTTTTATTTATACATATAT
325 ATTTTAAATACAAATTACTTATTTTATTTTATTTTATATAAATAGTTTTTTATTTATACATATAT
*
16989489 TTGTTTGCTAACGTGTTATTTGTCCAACAATCTTAAGATAAATTTTATTATTTTGCAATTCTCTA
390 TTGTTTGCTAACGTGTTATTTGTCCAACAATCTTAAGACAAATTTTATTATTTTGCAATTCTCTA
*
16989554 ATCCGAGACGAATGAGACACCAAGGCAAAAGAAAGAAAAA
455 ATCCGAGACGAACGAGACACCAAGGCAAAAGAAAGAAAAA
16989594 AGTTTTTATT
Statistics
Matches: 463, Mismatches: 31, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
501 223 0.48
502 240 0.52
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (501 bp):
CAGAATATTTTACACTGAGAGACTCTCTAAAACCGAGTTTATTTTGCTCTAAAAAATTCTTCTCT
TTTTCTCTCAATATTTTCCAATGTTCCAGTGATAGAAAAAGGCAAGGTTTGTTCATTAATCTCTG
CAAAGGTGCTACTGCTTCGATCATCGTGTTGTTGTATCCTGGGAGACAATCGACCAACGTTTCTC
CAAGTACCATAGGAGCGGCCAAATCTATCTTAAAGAAAATGTGTAAATAAGCCTCAACATCTAGT
AAAATTCGATTATTTATTTGATATCTGGTTTTCTAATCTTATTTATTGGTTTTTCATACTTGATA
TTTTAAATACAAATTACTTATTTTATTTTATTTTATATAAATAGTTTTTTATTTATACATATATT
TGTTTGCTAACGTGTTATTTGTCCAACAATCTTAAGACAAATTTTATTATTTTGCAATTCTCTAA
TCCGAGACGAACGAGACACCAAGGCAAAAGAAAGAAAAATCCAAGA
Found at i:16989824 original size:87 final size:85
Alignment explanation
Indices: 16989727--16990122 Score: 358
Period size: 87 Copynumber: 4.6 Consensus size: 85
16989717 AGGATTTATT
* * *
16989727 ATTTATTCCCGTCGTTCAATAGATTTTATTCAAATTTTAATTTTATTTCCAAAGCGAGTGTTAAA
1 ATTTATTCCCGCCGTTCAACAGATTTTATTC-AATTTTTATTTTATTTCCAAA-CGAGTGTTAAA
*
16989792 ATTAAATAAAATCTGTTTCAGG
64 ATTAAATAAAATCTGTTTCGGG
*
16989814 ATTTATTCCCGCCGTTCAACAGATTTTATTCCATTTTTTATTTTATTTCCAAAAACGAGTGTTAA
1 ATTTATTCCCGCCGTTCAACAGATTTTATT-CAATTTTTATTTTATTTCC--AAACGAGTGTTAA
* *
16989879 AATCAAATAAAATATGTTTCGGG
63 AATTAAATAAAATCTGTTTCGGG
* * * **
16989902 ATTTATT-CCGCCCGTTCAACAGATTTTATTCCATTTTTTTATTTAGTTTCCAAACAAGAAATT-
1 ATTTATTCCCG-CCGTTCAACAGATTTTATTCAATTTTTAT-TTTA-TTTCCAAACGAG-TGTTA
*
16989965 AAATTAAATAAAATCTATTTCGGG
62 AAATTAAATAAAATCTGTTTCGGG
*** * * * * *
16989989 ATTTATTCCATTCATTTAACAGATTTTATTCAGTTTTGATTTTGTTTCC-AA--A---TTAAAAT
1 ATTTATTCCCGCCGTTCAACAGATTTTATTCAATTTTTATTTTATTTCCAAACGAGTGTTAAAAT
* *
16990048 TGAATTGAGTAATCTGTTTCGGG
66 T-AAAT-A-AAATCTGTTTCGGG
* ** * * * *
16990071 ATTTATTCCCGCAGTTTGACAGATTTTATTCGATCTTGATTTTGTTTCCAAA
1 ATTTATTCCCGCCGTTCAACAGATTTTATTCAATTTTTATTTTATTTCCAAA
16990123 TGAAGACTTA
Statistics
Matches: 258, Mismatches: 38, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
78 2 0.01
79 5 0.02
80 3 0.01
81 1 0.00
82 53 0.21
83 2 0.01
84 2 0.01
85 5 0.02
86 3 0.01
87 110 0.43
88 64 0.25
89 8 0.03
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (85 bp):
ATTTATTCCCGCCGTTCAACAGATTTTATTCAATTTTTATTTTATTTCCAAACGAGTGTTAAAAT
TAAATAAAATCTGTTTCGGG
Found at i:16989909 original size:88 final size:88
Alignment explanation
Indices: 16989727--16990040 Score: 363
Period size: 87 Copynumber: 3.6 Consensus size: 88
16989717 AGGATTTATT
* * * * * *
16989727 ATTTATTCCCGTCGTTCAATAGATTTTATTCAAATTTTAATTTTATTTCC-AAAGCGAGTGTTAA
1 ATTTATTCCCGCCGTTCAACAGATTTTATTCCATTTTTTATTTTATTTCCAAAAACGAGTGTTAA
*
16989791 AATTAAATAAAATCTGTTTCAGG
66 AATTAAATAAAATCTGTTTCGGG
16989814 ATTTATTCCCGCCGTTCAACAGATTTTATTCCATTTTTTATTTTATTTCCAAAAACGAGTGTTAA
1 ATTTATTCCCGCCGTTCAACAGATTTTATTCCATTTTTTATTTTATTTCCAAAAACGAGTGTTAA
* *
16989879 AATCAAATAAAATATGTTTCGGG
66 AATTAAATAAAATCTGTTTCGGG
**
16989902 ATTTATT-CCGCCCGTTCAACAGATTTTATTCCATTTTTT-TATTTAGTTTCCAAACAA-GA-AA
1 ATTTATTCCCG-CCGTTCAACAGATTTTATTCCATTTTTTAT-TTTA-TTTCCAAA-AACGAGTG
*
16989963 TT-AAATTAAATAAAATCTATTTCGGG
62 TTAAAATTAAATAAAATCTGTTTCGGG
*** * * * * *
16989989 ATTTATTCCATTCATTTAACAGATTTTATT-CAGTTTTGATTTTGTTTCCAAA
1 ATTTATTCCCGCCGTTCAACAGATTTTATTCCATTTTTTATTTTATTTCCAAA
16990041 TTAAAATTGA
Statistics
Matches: 198, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
85 8 0.04
86 9 0.05
87 94 0.47
88 75 0.38
89 10 0.05
90 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (88 bp):
ATTTATTCCCGCCGTTCAACAGATTTTATTCCATTTTTTATTTTATTTCCAAAAACGAGTGTTAA
AATTAAATAAAATCTGTTTCGGG
Found at i:16990093 original size:82 final size:84
Alignment explanation
Indices: 16989790--16990158 Score: 297
Period size: 82 Copynumber: 4.3 Consensus size: 84
16989780 GCGAGTGTTA
* * * * *
16989790 AAATTAAATAAAATCTGTTTCAGGATTTATTCCCGCCGTTCAACAGATTTTATTCCATTTTTTAT
1 AAATTAAAT-AAATCTGTTTCGGGATTTATTCCCGCAGTTTAACAGATTTTATT-CAGTTTTGAT
* **
16989855 TTTATTTCCAAA-AACGAGTGTT
64 TTTGTTTCCAAATAA-GA-AATT
* * * * *
16989877 AAAATCAAATAAAATATGTTTCGGGATTTATT-CCGCCCGTTCAACAGATTTTATTCCATTTTTT
1 -AAATTAAAT-AAATCTGTTTCGGGATTTATTCCCG-CAGTTTAACAGATTTTATT-CA-GTTTT
* * *
16989941 TATTTAGTTTCCAAACAAGAAATT
61 GATTTTGTTTCCAAATAAGAAATT
* **
16989965 AAATTAAATAAAATCTATTTCGGGATTTATTCCATTCA-TTTAACAGATTTTATTCAGTTTTGAT
1 AAATTAAAT-AAATCTGTTTCGGGATTTATTCC-CGCAGTTTAACAGATTTTATTCAGTTTTGAT
*
16990029 TTTGTTTCCAAATTA-AAATT
64 TTTGTTTCCAAATAAGAAATT
* * * * *
16990049 GAATTGAGT-AATCTGTTTCGGGATTTATTCCCGCAGTTTGACAGATTTTATTC-GATCTTGATT
1 AAATTAAATAAATCTGTTTCGGGATTTATTCCCGCAGTTTAACAGATTTTATTCAG-TTTTGATT
*
16990112 TTGTTTCCAAATGAAG-ACTT
65 TTGTTTCCAAAT-AAGAAATT
* *
16990132 -AATCAAA-AAATTTTGTTTCGGGATTTA
1 AAATTAAATAAA-TCTGTTTCGGGATTTA
16990159 GTCATGTCGT
Statistics
Matches: 237, Mismatches: 33, Indels: 27
0.80 0.11 0.09
Matches are distributed among these distances:
81 3 0.01
82 62 0.26
83 19 0.08
84 11 0.05
85 18 0.08
86 2 0.01
87 46 0.19
88 54 0.23
89 20 0.08
90 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (84 bp):
AAATTAAATAAATCTGTTTCGGGATTTATTCCCGCAGTTTAACAGATTTTATTCAGTTTTGATTT
TGTTTCCAAATAAGAAATT
Found at i:16999068 original size:30 final size:26
Alignment explanation
Indices: 16999012--16999071 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 26
16999002 TCAAAATTAA
16999012 AAAAGAAAAAAGAAAAAATCAAAGTC
1 AAAAGAAAAAAGAAAAAATCAAAGTC
*
16999038 AAAAGCAAAAAAGAGAAATCAATTAAAGTC
1 AAAAG-AAAAAAGA-AAA--AATCAAAGTC
16999068 AAAA
1 AAAA
16999072 TAAAGATATG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 5 0.17
27 8 0.28
28 3 0.10
30 13 0.45
ACGTcount: A:0.70, C:0.08, G:0.12, T:0.10
Consensus pattern (26 bp):
AAAAGAAAAAAGAAAAAATCAAAGTC
Found at i:16999935 original size:6 final size:7
Alignment explanation
Indices: 16999915--16999948 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
16999905 GAAATGGAGG
16999915 ATGAAAA
1 ATGAAAA
16999922 ATGAAAA
1 ATGAAAA
16999929 ATG-AAA
1 ATGAAAA
16999935 ATGAAAA
1 ATGAAAA
16999942 ATGAAAA
1 ATGAAAA
16999949 GTAATGACGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
ATGAAAA
Found at i:16999937 original size:13 final size:13
Alignment explanation
Indices: 16999919--16999948 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
16999909 TGGAGGATGA
16999919 AAAATGAAAAATG
1 AAAATGAAAAATG
16999932 AAAATGAAAAATG
1 AAAATGAAAAATG
16999945 AAAA
1 AAAA
16999949 GTAATGACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:17001297 original size:44 final size:44
Alignment explanation
Indices: 17001247--17001337 Score: 110
Period size: 44 Copynumber: 2.1 Consensus size: 44
17001237 CCGAGCCTTG
* * * * * *
17001247 TCTCCCTGAGCAGCAGCGGAGCAGGTTAAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGCAGCGGAGCAGATCAAAGATGGCAAATCTTA
* *
17001291 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTA
1 TCTCCCTAAGCAGCAGCGGAGCAGATCAAAGATGGCAAATCTTA
17001335 TCT
1 TCT
17001338 TTCCAAGATA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (44 bp):
TCTCCCTAAGCAGCAGCGGAGCAGATCAAAGATGGCAAATCTTA
Found at i:17001422 original size:132 final size:132
Alignment explanation
Indices: 17001150--17001429 Score: 402
Period size: 132 Copynumber: 2.1 Consensus size: 132
17001140 GTGAATACTA
*
17001150 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTTCCAAGAT
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGAT
* ** *
17001215 AGTGGGAAGCAGATTTAGGCCACCGAGCCTTGTCTCCCTGAGCAGCAGCGGAGCAGGTTAAAGAT
66 AGTGGGAAGCAGATTTAGGCCACCGAGCCTTATCTCCCTGAGCAGCAGCGGAGCAGACTAAAGAA
*
17001280 TG
131 AG
* *
17001282 TAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGAT
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGAT
** * *
17001347 AGTGGGAAGCAGATTTAAGG-CACCGAGCCTTATCTCCCTGAAGTTGCAGCGGAGTAGACT-GAG
66 AGTGGGAAGCAGATTT-AGGCCACCGAGCCTTATCTCCCTG-AGCAGCAGCGGAGCAGACTAAAG
17001410 AAAG
129 AAAG
* *
17001414 CAGGTCTTATCCCCCT
1 CAGATCTTATCTCCCT
17001430 GAAGTTGCAG
Statistics
Matches: 131, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
132 114 0.87
133 17 0.13
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (132 bp):
CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGAT
AGTGGGAAGCAGATTTAGGCCACCGAGCCTTATCTCCCTGAGCAGCAGCGGAGCAGACTAAAGAA
AG
Found at i:17001572 original size:44 final size:43
Alignment explanation
Indices: 17001375--17001963 Score: 138
Period size: 44 Copynumber: 13.4 Consensus size: 43
17001365 GGCACCGAGC
* * * *
17001375 CTTATCTCCCTGAAGTTGCAGCGGAGTAGACT-GAGAA-AGCAGGT
1 CTTATCTCCCTGAAGTTACAGCGGAGCAGATTAAAGAATAG-A--T
* * * * * *
17001419 CTTATCCCCCTGAAGTTGCAGTGG-GACAGATCGAAGAGATTCAAAT
1 CTTATCTCCCTGAAGTTACAGCGGAG-CAGAT-TAA-AGAAT-AGAT
** * * *
17001465 CTTATCTCCCTGATA-TTACAATGCAGCAGATTGAAGCCAGTA-AT
1 CTTATCTCCCTGA-AGTTACAGCGGAGCAGATTAAAG--AATAGAT
* * *
17001509 CCTATCTCCC-GGAGATTACAGTGGAGCAGATTAAAGTAATAGAT
1 CTTATCTCCCTGAAG-TTACAGCGGAGCAGATTAAAG-AATAGAT
* * ** * *
17001553 CTTATCTCTCTGAAGTTACAGCAGAGTGGA-T-CAG-ATCAGGT
1 CTTATCTCCCTGAAGTTACAGCGGAGCAGATTAAAGAAT-AGAT
* * * *
17001594 CTTATCTCCCTAAAGTTACAGCGGAGCAGATT-GAGCAAGCAGGT
1 CTTATCTCCCTGAAGTTACAGCGGAGCAGATTAAAG-AA-TAGAT
* * * * * * * *
17001638 CTTATCCCCCTAAAGTTGCAGTGGGGCAGATCGAAGAGATTCAAAT
1 CTTATCTCCCTGAAGTTACAGCGGAGCAGAT-TAA-AGAAT-AGAT
* * * *
17001684 ATTATCTCCTTG-AGATTACAGCGGAGCAGATTGAAGCCAGTA-AT
1 CTTATCTCCCTGAAG-TTACAGCGGAGCAGATTAAAG--AATAGAT
* * * *
17001728 CCTATCTCCCTG-AGATTAGAGTGGAGCGGATTAAAGTAATAGAT
1 CTTATCTCCCTGAAG-TTACAGCGGAGCAGATTAAAG-AATAGAT
* * ** *** **
17001772 CTTATCTCTCTGAAGTTACAGCAGAGTGGATCGCATCA-AG-T
1 CTTATCTCCCTGAAGTTACAGCGGAGCAGATTAAAGAATAGAT
* * * ** * *
17001813 CTTATC-CCCTTGAAGTCACAGTGG-GACAAATCGAAGATGACAAAT
1 CTTATCTCCC-TGAAGTTACAGCGGAG-CAGATTAAAGA--ATAGAT
* *
17001858 CTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGCCAGTA-AT
1 CTTATCTCCCTGAAG-TTACAGCGGAGCAGATTAAAG--AATAGAT
* * **
17001902 CATATCTCCCTG-AGATTACAGTGGAGTGGATTAAAGTAATAGAT
1 CTTATCTCCCTGAAG-TTACAGCGGAGCAGATTAAAG-AATAGAT
* *
17001946 CTTATCTCTCTAAAGTTA
1 CTTATCTCCCTGAAGTTA
17001964 TAGTAGAGTG
Statistics
Matches: 399, Mismatches: 105, Indels: 82
0.68 0.18 0.14
Matches are distributed among these distances:
40 5 0.01
41 51 0.13
42 8 0.02
43 14 0.04
44 217 0.54
45 38 0.10
46 56 0.14
47 8 0.02
48 1 0.00
49 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (43 bp):
CTTATCTCCCTGAAGTTACAGCGGAGCAGATTAAAGAATAGAT
Found at i:17001636 original size:219 final size:219
Alignment explanation
Indices: 17001375--17001822 Score: 720
Period size: 219 Copynumber: 2.1 Consensus size: 219
17001365 GGCACCGAGC
* * * *
17001375 CTTATCTCCCTGAAGTTGCAGCGGAGTAGACTGAGAAAGCAGGTCTTATCCCCCTGAAGTTGCAG
1 CTTATCTCCCTAAAGTTACAGCGGAGCAGACTGAGAAAGCAGGTCTTATCCCCCTAAAGTTGCAG
* * *
17001440 TGGGACAGATCGAAGAGATTCAAATCTTATCTCCCTGATATTACAATGCAGCAGATTGAAGCCAG
66 TGGGACAGATCGAAGAGATTCAAATATTATCTCCCTGAGATTACAACGCAGCAGATTGAAGCCAG
17001505 TAATCCTATCTCCCGGAGATTACAGTGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTT
131 TAATCCTATCTCCCGGAGATTACAGTGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTT
*
17001570 ACAGCAGAGTGGATCAG-ATCAGGT
196 ACAGCAGAGTGGATC-GCATCAAGT
* *
17001594 CTTATCTCCCTAAAGTTACAGCGGAGCAGATTGAGCAAGCAGGTCTTATCCCCCTAAAGTTGCAG
1 CTTATCTCCCTAAAGTTACAGCGGAGCAGACTGAGAAAGCAGGTCTTATCCCCCTAAAGTTGCAG
* * * *
17001659 TGGGGCAGATCGAAGAGATTCAAATATTATCTCCTTGAGATTACAGCGGAGCAGATTGAAGCCAG
66 TGGGACAGATCGAAGAGATTCAAATATTATCTCCCTGAGATTACAACGCAGCAGATTGAAGCCAG
* * *
17001724 TAATCCTATCTCCCTGAGATTAGAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTT
131 TAATCCTATCTCCCGGAGATTACAGTGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTT
17001789 ACAGCAGAGTGGATCGCATCAAGT
196 ACAGCAGAGTGGATCGCATCAAGT
17001813 CTTATC-CCCT
1 CTTATCTCCCT
17001823 TGAAGTCACA
Statistics
Matches: 211, Mismatches: 17, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
218 5 0.02
219 206 0.98
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (219 bp):
CTTATCTCCCTAAAGTTACAGCGGAGCAGACTGAGAAAGCAGGTCTTATCCCCCTAAAGTTGCAG
TGGGACAGATCGAAGAGATTCAAATATTATCTCCCTGAGATTACAACGCAGCAGATTGAAGCCAG
TAATCCTATCTCCCGGAGATTACAGTGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTT
ACAGCAGAGTGGATCGCATCAAGT
Found at i:17002057 original size:86 final size:85
Alignment explanation
Indices: 17001770--17002044 Score: 238
Period size: 86 Copynumber: 3.2 Consensus size: 85
17001760 AAAGTAATAG
* *
17001770 ATCTTATCTCTCTGAAGTTACAGCAGAGTGGATCGCATCAAGTCTTATCCCCTTGAAGTCACAGT
1 ATCTTATCTCCCTGAAGTTACAGCAGAGTGGATC-CATCAAGTCTTATCCCCCTGAAGTCACAGT
17001835 GGGACAAATCGAAGATGACAA
65 GGGACAAATCGAAGATGACAA
* * * *
17001856 ATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGCCAGT-AA-TCATATCTCCCTG-AGA
1 ATCTTATCTCCCTGAAG-TTACAGC--AG-AG--TGGATCCA-TCAAGTCTTATCCCCCTGAAG-
* *** ** * * *
17001917 TTACAGT-GGAGTGGATTAAAG-TAATAG
58 TCACAGTGGGA-CAAATCGAAGATGACAA
* * * *
17001944 ATCTTATCTCTCTAAAGTTATAGTAGAGTGGATCACATCAAGTCTTATCCCCCTGAAGTCACAGT
1 ATCTTATCTCCCTGAAGTTACAGCAGAGTGGATC-CATCAAGTCTTATCCCCCTGAAGTCACAGT
17002009 GGGACAAATCGAAGATGACAA
65 GGGACAAATCGAAGATGACAA
17002030 ATCTTATCTCCCTGA
1 ATCTTATCTCCCTGA
17002045 GGTTGCAATA
Statistics
Matches: 139, Mismatches: 34, Indels: 32
0.68 0.17 0.16
Matches are distributed among these distances:
83 5 0.04
84 4 0.03
85 26 0.19
86 43 0.31
88 27 0.19
89 25 0.18
90 4 0.03
91 5 0.04
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (85 bp):
ATCTTATCTCCCTGAAGTTACAGCAGAGTGGATCCATCAAGTCTTATCCCCCTGAAGTCACAGTG
GGACAAATCGAAGATGACAA
Found at i:17002061 original size:174 final size:174
Alignment explanation
Indices: 17001636--17002045 Score: 660
Period size: 174 Copynumber: 2.4 Consensus size: 174
17001626 GAGCAAGCAG
* ** * * * *
17001636 GTCTTATCCCCCTAAAGTTGCAGTGGGGCAGATCGAAGA-GATTCAAATATTATCTCCTTGAGAT
1 GTCTTATCCCCCTGAAGTCACAGTGGGACAAATCGAAGATGA--CAAATCTTATCTCCCTGAGAT
* *
17001700 TACAGCGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAGATTAGAGTGGAGCGGATTAAAGT
64 TACAGCGGAGCAGATTGAAGCCAGTAATCATATCTCCCTGAGATTACAGTGGAGCGGATTAAAGT
* *
17001765 AATAGATCTTATCTCTCTGAAGTTACAGCAGAGTGGATCGCATCAA
129 AATAGATCTTATCTCTCTAAAGTTACAGCAGAGTGGATCACATCAA
*
17001811 GTCTTATCCCCTTGAAGTCACAGTGGGACAAATCGAAGATGACAAATCTTATCTCCCTGAGATTA
1 GTCTTATCCCCCTGAAGTCACAGTGGGACAAATCGAAGATGACAAATCTTATCTCCCTGAGATTA
*
17001876 CAGCGGAGCAGATTGAAGCCAGTAATCATATCTCCCTGAGATTACAGTGGAGTGGATTAAAGTAA
66 CAGCGGAGCAGATTGAAGCCAGTAATCATATCTCCCTGAGATTACAGTGGAGCGGATTAAAGTAA
* *
17001941 TAGATCTTATCTCTCTAAAGTTATAGTAGAGTGGATCACATCAA
131 TAGATCTTATCTCTCTAAAGTTACAGCAGAGTGGATCACATCAA
17001985 GTCTTATCCCCCTGAAGTCACAGTGGGACAAATCGAAGATGACAAATCTTATCTCCCTGAG
1 GTCTTATCCCCCTGAAGTCACAGTGGGACAAATCGAAGATGACAAATCTTATCTCCCTGAG
17002046 GTTGCAATAG
Statistics
Matches: 218, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
174 183 0.84
175 33 0.15
176 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (174 bp):
GTCTTATCCCCCTGAAGTCACAGTGGGACAAATCGAAGATGACAAATCTTATCTCCCTGAGATTA
CAGCGGAGCAGATTGAAGCCAGTAATCATATCTCCCTGAGATTACAGTGGAGCGGATTAAAGTAA
TAGATCTTATCTCTCTAAAGTTACAGCAGAGTGGATCACATCAA
Found at i:17002105 original size:44 final size:44
Alignment explanation
Indices: 17002026--17002124 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 44
17002016 ATCGAAGATG
* * *
17002026 ACAAATCTTATCTCCCTGAGGTTGCAATAGAGCAGACTGAGAAA
1 ACAAATCTTATCCCCCTGAAGTTACAATAGAGCAGACTGAGAAA
* *
17002070 ACAAGTCTTATCCCCCTGAAGTTACTAT-GAGGCAGACTGA-AAA
1 ACAAATCTTATCCCCCTGAAGTTACAATAGA-GCAGACTGAGAAA
17002113 TAGCAAATCTTA
1 -A-CAAATCTTA
17002125 CCTTCCAGAC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
43 5 0.11
44 33 0.72
45 8 0.17
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.24
Consensus pattern (44 bp):
ACAAATCTTATCCCCCTGAAGTTACAATAGAGCAGACTGAGAAA
Found at i:17003740 original size:3 final size:3
Alignment explanation
Indices: 17003732--17003769 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
17003722 TTTTTTAAAT
17003732 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
17003770 TCTATATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:17015089 original size:20 final size:20
Alignment explanation
Indices: 17015044--17015096 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
17015034 CATATATCCT
* *
17015044 AAATT-ATTTGATTCCAATT
1 AAATTGATTTGATTTCAATC
* *
17015063 AATTTGATTTGATTTTAATC
1 AAATTGATTTGATTTCAATC
17015083 AAATTGATTT-ATTT
1 AAATTGATTTGATTT
17015097 GCTAGTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.53
Consensus pattern (20 bp):
AAATTGATTTGATTTCAATC
Found at i:17028020 original size:22 final size:22
Alignment explanation
Indices: 17027994--17028042 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
17027984 TATTTTAAAA
*
17027994 ATTAAAAATCAT-TAAAATTATT
1 ATTAAAAAT-ATAAAAAATTATT
17028016 ATTAAAAATATAAAAAATTATT
1 ATTAAAAATATAAAAAATTATT
17028038 -TTAAA
1 ATTAAA
17028043 TATTTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
ATTAAAAATATAAAAAATTATT
Found at i:17028032 original size:31 final size:30
Alignment explanation
Indices: 17027974--17028064 Score: 89
Period size: 31 Copynumber: 3.0 Consensus size: 30
17027964 ATTTTTTAAA
17027974 ATTTAAAACTTATTTTAAAAATT-AAAAATC
1 ATTTAAAA-TTATTTTAAAAATTAAAAAATC
*
17028004 A-TTAAAATTATTATTAAAAATATAAAAAATT
1 ATTTAAAATTATT-TTAAAAAT-TAAAAAATC
* *
17028035 ATTTTAAA-TATTTTTAAAATTTTAAAAAAT
1 ATTTAAAATTA-TTTTAAAA-ATTAAAAAAT
17028065 TAATTAAATG
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
28 5 0.10
29 14 0.27
30 2 0.04
31 23 0.44
32 8 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (30 bp):
ATTTAAAATTATTTTAAAAATTAAAAAATC
Found at i:17028035 original size:28 final size:27
Alignment explanation
Indices: 17027971--17028035 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 27
17027961 TTAATTTTTT
*
17027971 AAAATTTAAAACTTATTTTAAAAATTA
1 AAAAATTAAAACTTATTTTAAAAATTA
17027998 AAAATCATTAAAA-TTATTATTAAAAATATA
1 AAAA--ATTAAAACTTATT-TTAAAAAT-TA
17028028 AAAAATTA
1 AAAAATTA
17028036 TTTTAAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
27 4 0.12
28 9 0.27
29 14 0.42
30 6 0.18
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (27 bp):
AAAAATTAAAACTTATTTTAAAAATTA
Found at i:17028053 original size:21 final size:22
Alignment explanation
Indices: 17027994--17028055 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
17027984 TATTTTAAAA
17027994 ATTAAAAATCA-TTAAAATTATT
1 ATTAAAAAT-ATTTAAAATTATT
**
17028016 ATTAAAAATATAAAAAATTATT
1 ATTAAAAATATTTAAAATTATT
* *
17028038 -TTAAATATTTTTAAAATT
1 ATTAAAAATATTTAAAATT
17028056 TTAAAAAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 15 0.45
22 18 0.55
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTAAAAATATTTAAAATTATT
Found at i:17032601 original size:17 final size:17
Alignment explanation
Indices: 17032579--17032612 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17032569 ATATCAACAG
* *
17032579 AATAAAATATTTTAAAA
1 AATAAAAAACTTTAAAA
17032596 AATAAAAAACTTTAAAA
1 AATAAAAAACTTTAAAA
17032613 TTAACTTAAT
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:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAAAAAACTTTAAAA
Found at i:17034696 original size:23 final size:24
Alignment explanation
Indices: 17034668--17034713 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
17034658 GCTAACACAT
*
17034668 TTTTTC-TTAATTTGGTATTTAAC
1 TTTTTCTTTAATTTGGTACTTAAC
17034691 TTTTTCTTTAATTTGGTACTTAA
1 TTTTTCTTTAATTTGGTACTTAA
17034714 ACTTCACACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.22, C:0.09, G:0.09, T:0.61
Consensus pattern (24 bp):
TTTTTCTTTAATTTGGTACTTAAC
Found at i:17034745 original size:31 final size:31
Alignment explanation
Indices: 17034689--17034780 Score: 103
Period size: 31 Copynumber: 2.9 Consensus size: 31
17034679 TTGGTATTTA
*
17034689 ACTTTTTCTTTAATTTGGTACTTAAACTTCAC
1 ACTTTTTC-CTAATTTGGTACTTAAACTTCAC
* * * *
17034721 ACTTTTTCCTAATTTGATATTTAAATTTGAC
1 ACTTTTTCCTAATTTGGTACTTAAACTTCAC
* *
17034752 AATTTTTCCTTAAGTTGGTACTTAAACTT
1 ACTTTTTCC-TAATTTGGTACTTAAACTT
17034781 TTTGAGGGTC
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
31 26 0.53
32 23 0.47
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.50
Consensus pattern (31 bp):
ACTTTTTCCTAATTTGGTACTTAAACTTCAC
Found at i:17035385 original size:15 final size:17
Alignment explanation
Indices: 17035367--17035405 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
17035357 CTTTTGAATA
17035367 TTACAATTTTC-CC-TT
1 TTACAATTTTCTCCATT
17035382 TTAC--TTTTCTCCATT
1 TTACAATTTTCTCCATT
17035397 TTACAATTT
1 TTACAATTT
17035406 AGTTTGTACC
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
13 5 0.25
14 2 0.10
15 10 0.50
17 3 0.15
ACGTcount: A:0.21, C:0.23, G:0.00, T:0.56
Consensus pattern (17 bp):
TTACAATTTTCTCCATT
Found at i:17035658 original size:14 final size:14
Alignment explanation
Indices: 17035639--17035676 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
17035629 GTTTGCCAGT
17035639 AAAATG-TTTTCTGG
1 AAAATGATTTT-TGG
17035653 AAAATGATTTTTGG
1 AAAATGATTTTTGG
17035667 AAAATGATTT
1 AAAATGATTT
17035677 ACTTTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.42
Consensus pattern (14 bp):
AAAATGATTTTTGG
Found at i:17035685 original size:21 final size:21
Alignment explanation
Indices: 17035660--17035700 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
17035650 TGGAAAATGA
17035660 TTTTTGGAAAATGATTTACTT
1 TTTTTGGAAAATGATTTACTT
17035681 TTTTTGGAAAATGATTTACT
1 TTTTTGGAAAATGATTTACT
17035701 GAAAATATTT
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:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (21 bp):
TTTTTGGAAAATGATTTACTT
Found at i:17035705 original size:35 final size:34
Alignment explanation
Indices: 17035645--17035710 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
17035635 CAGTAAAATG
*
17035645 TTTTCTGGAAAATGATTTTTGGAAAATGATTTACT
1 TTTTCTGGAAAATGATTTCTGGAAAAT-ATTTACT
*
17035680 TTTTTTGGAAAATGATTTACT-GAAAATATTT
1 TTTTCTGGAAAATGATTT-CTGGAAAATATTT
17035711 TCTGGTGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 4 0.14
35 23 0.82
36 1 0.04
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (34 bp):
TTTTCTGGAAAATGATTTCTGGAAAATATTTACT
Found at i:17035776 original size:32 final size:32
Alignment explanation
Indices: 17035691--17035777 Score: 97
Period size: 33 Copynumber: 2.7 Consensus size: 32
17035681 TTTTTGGAAA
* *
17035691 ATGATTTACTGAAAATATTTTCTGGTGTTTGG
1 ATGATTTCCTGAAAATATTTTCTGATGTTTGG
* *
17035723 ATGA-ATCTATGTAAAATATTTTCTGATGTTTGG
1 ATGATTTC-CTG-AAAATATTTTCTGATGTTTGG
17035756 CA-GATTTCCTGAAAATATTTTC
1 -ATGATTTCCTGAAAATATTTTC
17035778 CGGAATTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
31 1 0.02
32 17 0.38
33 24 0.53
34 3 0.07
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.45
Consensus pattern (32 bp):
ATGATTTCCTGAAAATATTTTCTGATGTTTGG
Found at i:17035821 original size:20 final size:20
Alignment explanation
Indices: 17035796--17035834 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
17035786 TTTTTTACAT
17035796 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
17035816 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
17035835 TTTTAAATTG
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:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:17037111 original size:27 final size:27
Alignment explanation
Indices: 17037060--17037114 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
17037050 GTCAATCATT
*
17037060 TCAATATCTAACAAGCTTAAAACATAA
1 TCAATATCTAACAAGATTAAAACATAA
*
17037087 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATT-AAAACATAA
17037114 T
1 T
17037115 AATTTCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.51, C:0.18, G:0.04, T:0.27
Consensus pattern (27 bp):
TCAATATCTAACAAGATTAAAACATAA
Found at i:17038629 original size:21 final size:21
Alignment explanation
Indices: 17038603--17038669 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
17038593 GCATTAATAA
*
17038603 TTTTTTGAGAAATTAAGCTAC
1 TTTTTTCAGAAATTAAGCTAC
** *
17038624 TTTTTTTTGTAAATTTAA--TAAT
1 TTTTTTCAG-AAA-TTAAGCT-AC
17038646 TTTTTTCAGAAATTAAGCTAC
1 TTTTTTCAGAAATTAAGCTAC
17038667 TTT
1 TTT
17038670 CATTGTACCA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
20 4 0.11
21 15 0.43
22 12 0.34
23 4 0.11
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.52
Consensus pattern (21 bp):
TTTTTTCAGAAATTAAGCTAC
Found at i:17038637 original size:22 final size:21
Alignment explanation
Indices: 17038611--17038669 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
17038601 AATTTTTTGA
17038611 GAAATTAAGCTACTTTTTTTT
1 GAAATTAAGCTACTTTTTTTT
* *
17038632 GTAAATTTAA--TAATTTTTTTCA
1 G-AAA-TTAAGCTACTTTTTTT-T
17038654 GAAATTAAGCTACTTT
1 GAAATTAAGCTACTTT
17038670 CATTGTACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
20 4 0.13
21 13 0.43
22 9 0.30
23 4 0.13
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.49
Consensus pattern (21 bp):
GAAATTAAGCTACTTTTTTTT
Found at i:17038676 original size:42 final size:42
Alignment explanation
Indices: 17038596--17038676 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 42
17038586 TATAATTGCA
* **
17038596 TTAATAATTTTTTGAGAAATTAAGCTACTTTTTTTTGTAAAT
1 TTAATAATTTTTTCAGAAATTAAGCTACTTTTCATTGTAAAT
17038638 TTAATAATTTTTTTCAGAAATTAAGCTAC-TTTCATTGTA
1 TTAATAA-TTTTTTCAGAAATTAAGCTACTTTTCATTGTA
17038677 CCAATACTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 15 0.43
43 20 0.57
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (42 bp):
TTAATAATTTTTTCAGAAATTAAGCTACTTTTCATTGTAAAT
Found at i:17045646 original size:360 final size:360
Alignment explanation
Indices: 17044985--17045707 Score: 1437
Period size: 360 Copynumber: 2.0 Consensus size: 360
17044975 GTTTAGCTGA
17044985 ATTCTTTATCAAACGCCTCCAACTAATAGCTAAATCATTGTTTATGAGAACAAAACTTCCTATTT
1 ATTCTTTATCAAACGCCTCCAACTAATAGCTAAATCATTGTTTATGAGAACAAAACTTCCTATTT
17045050 CAACATGAGATTACGTTAATTTACATGTACGGATCAAGTAAATAAATTACAAATATTCCACATTA
66 CAACATGAGATTACGTTAATTTACATGTACGGATCAAGTAAATAAATTACAAATATTCCACATTA
17045115 CAGTTGGCTTTTAGTCAGGAGCTAAATATTTCCCATCTTAGAATTTTTGGATATGTGATATATAT
131 CAGTTGGCTTTTAGTCAGGAGCTAAATATTTCCCATCTTAGAATTTTTGGATATGTGATATATAT
17045180 TTCAATTACTCCACCACAACGCACAAAGATGGGTCCTCAAAGGAGGTTGGGAATATATGTTGGTT
196 TTCAATTACTCCACCACAACGCACAAAGATGGGTCCTCAAAGGAGGTTGGGAATATATGTTGGTT
17045245 ATGAATCTCCTTCTTTAATTAAGTATGTTGAACCATTAACTAGAAATTTATTTAGTGCACGATTT
261 ATGAATCTCCTTCTTTAATTAAGTATGTTGAACCATTAACTAGAAATTTATTTAGTGCACGATTT
17045310 TTTGATTGTCACTTTGATGAAACAATATTCACAAC
326 TTTGATTGTCACTTTGATGAAACAATATTCACAAC
17045345 ATTCTTTATCAAACGCCTCCAACTAATAGCTAAATCATTGTTTATGAGAACAAAACTTCCTATTT
1 ATTCTTTATCAAACGCCTCCAACTAATAGCTAAATCATTGTTTATGAGAACAAAACTTCCTATTT
17045410 CAACATGAGATTACGTTAATTTACATGTACGGATCAAGTAAATAAATTACAAATATTCCACATTA
66 CAACATGAGATTACGTTAATTTACATGTACGGATCAAGTAAATAAATTACAAATATTCCACATTA
17045475 CAGTTGGCTTTTAGTCAGGAGCTAAATATTTCCCATCTTAGAATTTTTGGATATGTGATATATAT
131 CAGTTGGCTTTTAGTCAGGAGCTAAATATTTCCCATCTTAGAATTTTTGGATATGTGATATATAT
17045540 TTCAATTACTCCACCACAACGCACAAAGATGGGTCCTCAAAGGAGGTTGGGAATATATGTTGGTT
196 TTCAATTACTCCACCACAACGCACAAAGATGGGTCCTCAAAGGAGGTTGGGAATATATGTTGGTT
*
17045605 ATGAATCTCCTTCTTTAATTAAGTATGTTGAACCATTAACTAGAGATTTATTTAGTGCACGATTT
261 ATGAATCTCCTTCTTTAATTAAGTATGTTGAACCATTAACTAGAAATTTATTTAGTGCACGATTT
17045670 TTTGATTGTCACTTTGATGAAACAATATTCACAAC
326 TTTGATTGTCACTTTGATGAAACAATATTCACAAC
17045705 ATT
1 ATT
17045708 AGGGGGAGAG
Statistics
Matches: 362, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
360 362 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (360 bp):
ATTCTTTATCAAACGCCTCCAACTAATAGCTAAATCATTGTTTATGAGAACAAAACTTCCTATTT
CAACATGAGATTACGTTAATTTACATGTACGGATCAAGTAAATAAATTACAAATATTCCACATTA
CAGTTGGCTTTTAGTCAGGAGCTAAATATTTCCCATCTTAGAATTTTTGGATATGTGATATATAT
TTCAATTACTCCACCACAACGCACAAAGATGGGTCCTCAAAGGAGGTTGGGAATATATGTTGGTT
ATGAATCTCCTTCTTTAATTAAGTATGTTGAACCATTAACTAGAAATTTATTTAGTGCACGATTT
TTTGATTGTCACTTTGATGAAACAATATTCACAAC
Found at i:17049529 original size:24 final size:24
Alignment explanation
Indices: 17049495--17049546 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
17049485 TTTCTAGAAG
* **
17049495 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
17049519 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
17049543 ATTT
1 ATTT
17049547 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:17053567 original size:24 final size:24
Alignment explanation
Indices: 17053533--17053584 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
17053523 TTTCTAGAAG
* * *
17053533 ATTTAGTATTTATGGGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
17053557 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
17053581 ATTT
1 ATTT
17053585 GAATTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:17053595 original size:24 final size:24
Alignment explanation
Indices: 17053550--17053596 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
17053540 ATTTATGGGT
*
17053550 ATAATATATTTAGCATTTATTAGC
1 ATAATATATTTAGAATTTATTAGC
17053574 ATAATATATTT-GAATTTGATTAG
1 ATAATATATTTAGAATTT-ATTAG
17053597 AAATAGGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (24 bp):
ATAATATATTTAGAATTTATTAGC
Found at i:17054668 original size:104 final size:105
Alignment explanation
Indices: 17054548--17054801 Score: 255
Period size: 105 Copynumber: 2.4 Consensus size: 105
17054538 TTTCTAAAGG
* * * * *
17054548 AGTAGTAGGTCGGGTTGGATATGTTCAAACACATGCTAACAATTAAAGTCTT-TT-CCTTTTGTA
1 AGTAGTAGGTCAGGTTGGATATATTCAAACACATGCTAACAACTAAAATATTCTTACCTTTTGTA
* *** *
17054611 TACCTC-AATTTCTTTTTTTTTAATCGAAAACACACTATAGA
66 CACCTCTAA-TTCTTTTCCATT-ATAGAAAACACACTATAGA
* * * * *
17054652 AGTAGTAGGTCAGGTTGGGTATATTCAAATC-CGTTCTAACAACTAAAATATTCTTAGCTTTTTT
1 AGTAGTAGGTCAGGTTGGATATATTCAAA-CACATGCTAACAACTAAAATATTCTTACCTTTTGT
* *
17054716 CCACCTCTAATTCTTTTCCATTATAGAAAACACACTATATA
65 ACACCTCTAATTCTTTTCCATTATAGAAAACACACTATAGA
* * * **
17054757 AATAGTAGGTCAGGCTAGATATATTCAAACACATTTTAACAACTA
1 AGTAGTAGGTCAGGTTGGATATATTCAAACACATGCTAACAACTA
17054802 TGAATGCTCT
Statistics
Matches: 122, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
104 43 0.35
105 57 0.47
106 20 0.16
107 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.36
Consensus pattern (105 bp):
AGTAGTAGGTCAGGTTGGATATATTCAAACACATGCTAACAACTAAAATATTCTTACCTTTTGTA
CACCTCTAATTCTTTTCCATTATAGAAAACACACTATAGA
Found at i:17054936 original size:39 final size:39
Alignment explanation
Indices: 17054882--17054960 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
17054872 CCTCACCCTC
17054882 TAACCATTTTCTTTATTGTTGGATCCTTTATCCTATATT
1 TAACCATTTTCTTTATTGTTGGATCCTTTATCCTATATT
* * *
17054921 TAACCATTTTCTTTATTGTTTGATCCTTTCTCTTATATT
1 TAACCATTTTCTTTATTGTTGGATCCTTTATCCTATATT
17054960 T
1 T
17054961 GCTACTACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.19, C:0.18, G:0.06, T:0.57
Consensus pattern (39 bp):
TAACCATTTTCTTTATTGTTGGATCCTTTATCCTATATT
Found at i:17060392 original size:51 final size:51
Alignment explanation
Indices: 17060311--17060523 Score: 322
Period size: 51 Copynumber: 4.2 Consensus size: 51
17060301 ACTTCTGATC
17060311 AGTGACAAGTGATAAGT-AGTAGCTTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGA-TAGCTTCAGCTACACTTATCTGATCAGTGACA
* *
17060362 AGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAATGACA
1 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
* * *
17060413 AGTGACAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
* * *
17060464 AGTGGCAAGTGATAAGTGGTAGCTT-AGCTACACTTATCTGATCAGGGACA
1 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
*
17060514 AGTGATAAGT
1 AGTGACAAGT
17060524 TATCATACGT
Statistics
Matches: 149, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
50 32 0.21
51 116 0.78
52 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
Done.