Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 49 of 226
Found at i:16426515 original size:13 final size:13
Alignment explanation
Indices: 16426484--16426524 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
16426474 GACGAAACAG
*
16426484 AGAAGGAAAG-AA
1 AGAAAGAAAGAAA
*
16426496 GGAAAGAAAGAAA
1 AGAAAGAAAGAAA
16426509 AGAAAGAAAGAAA
1 AGAAAGAAAGAAA
16426522 AGA
1 AGA
16426525 GAAAATTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAGAAA
Found at i:16427992 original size:12 final size:12
Alignment explanation
Indices: 16427972--16428007 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
16427962 ATGAACCAAG
16427972 AGTTCATGAAAT
1 AGTTCATGAAAT
* *
16427984 AGTTAATGATAT
1 AGTTCATGAAAT
16427996 AGTTCATGAAAT
1 AGTTCATGAAAT
16428008 GATTTTGATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.36
Consensus pattern (12 bp):
AGTTCATGAAAT
Found at i:16428660 original size:17 final size:17
Alignment explanation
Indices: 16428627--16428660 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16428617 ACGTGGCATG
*
16428627 TACCTAAGTTATATATA
1 TACCTAAGTGATATATA
*
16428644 TACCTAAGTGATGTATA
1 TACCTAAGTGATATATA
16428661 GGAATTTGTC
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:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (17 bp):
TACCTAAGTGATATATA
Found at i:16433207 original size:19 final size:19
Alignment explanation
Indices: 16433179--16433236 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
16433169 GAAATTCAAT
*
16433179 TAATTTTTAATTTAAACTA
1 TAATTATTAATTTAAACTA
* *
16433198 TAATTATTAAGTTAAACTT
1 TAATTATTAATTTAAACTA
16433217 TAATTATTTAATTTTAAACT
1 TAATTA-TTAA-TTTAAACT
16433237 TGATTTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 22 0.67
20 4 0.12
21 7 0.21
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (19 bp):
TAATTATTAATTTAAACTA
Found at i:16433252 original size:39 final size:38
Alignment explanation
Indices: 16433178--16433252 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 38
16433168 AGAAATTCAA
*
16433178 TTAATTTTTAATTTAAACTATAATTATTAAGTTAAACT
1 TTAATTTTTAATTTAAACTATAATTATTAAATTAAACT
* *
16433216 TTAATTATTTAATTTTAAACT-TGATTTTTAAATTAAA
1 TTAATT-TTTAA-TTTAAACTATAATTATTAAATTAAA
16433253 ATTAAGAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 6 0.19
39 18 0.56
40 8 0.25
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (38 bp):
TTAATTTTTAATTTAAACTATAATTATTAAATTAAACT
Found at i:16433317 original size:89 final size:89
Alignment explanation
Indices: 16433157--16433319 Score: 220
Period size: 89 Copynumber: 1.8 Consensus size: 89
16433147 TATTTCTATT
* *
16433157 AATTAAAAATAAGAAATTCAATTAATTTTTAATTTAAACTATAATTATTAAGTTAAACTTTAATT
1 AATTAAAAATAAGAAATTCAATTAATTTTTAACTTAAACTATAATTATCAAGTTAAACTTTAATT
*
16433222 ATTTAATTTTAAACTTGATTTTTA
66 AATTAATTTTAAACTTGATTTTTA
* * * * * * *
16433246 AATTAAAATTAAGAATTTCATTTCATTTTTAGCTTATACTTTAATTATCAAGTTAAACTTT-ATG
1 AATTAAAAATAAGAAATTCAATTAATTTTTAACTTAAACTATAATTATCAAGTTAAACTTTAAT-
16433310 TAATTAATTT
65 TAATTAATTT
16433320 ATTTACTTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
88 2 0.03
89 61 0.97
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (89 bp):
AATTAAAAATAAGAAATTCAATTAATTTTTAACTTAAACTATAATTATCAAGTTAAACTTTAATT
AATTAATTTTAAACTTGATTTTTA
Found at i:16433466 original size:9 final size:9
Alignment explanation
Indices: 16433442--16433474 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
16433432 AATAATTGAA
16433442 TAATTTATT
1 TAATTTATT
16433451 T-ATTTATT
1 TAATTTATT
16433459 TAATTTATT
1 TAATTTATT
*
16433468 TACTTTA
1 TAATTTA
16433475 CACTATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (9 bp):
TAATTTATT
Found at i:16433522 original size:47 final size:46
Alignment explanation
Indices: 16433448--16433698 Score: 333
Period size: 47 Copynumber: 5.3 Consensus size: 46
16433438 TGAATAATTT
**
16433448 ATTTATTTATTTAATTTATTTACTTTACACTATATAATAACTTAATA
1 ATTTATTTATTTAATACATTTACTTTACACTATATAATAA-TTAATA
* * *
16433495 ATTTATTTATTTAAAACATTTATTTTACACTATATAATAATCAAATA
1 ATTTATTTATTTAATACATTTACTTTACACTATATAATAAT-TAATA
*
16433542 ATTTATTTATTTAATTA-TTTTACTTTACACTATATAATAATTTAATA
1 ATTTATTTATTTAA-TACATTTACTTTACACTATATAATAA-TTAATA
* * *
16433589 ATTTATTTATTTAAAACATTTATTTTACACCATATAATAATTTAATA
1 ATTTATTTATTTAATACATTTACTTTACACTATATAATAA-TTAATA
** *
16433636 ATTTATTTATTTAATTTATTTACTTTACACTATATAATAATGGAATA
1 ATTTATTTATTTAATACATTTACTTTACACTATATAATAAT-TAATA
16433683 ATTTATTTATTTAATA
1 ATTTATTTATTTAATA
16433699 ATTGGATAAT
Statistics
Matches: 179, Mismatches: 20, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
46 3 0.02
47 174 0.97
48 2 0.01
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (46 bp):
ATTTATTTATTTAATACATTTACTTTACACTATATAATAATTAATA
Found at i:16433569 original size:94 final size:93
Alignment explanation
Indices: 16433448--16433696 Score: 419
Period size: 94 Copynumber: 2.6 Consensus size: 93
16433438 TGAATAATTT
16433448 ATTTATTTATTTAATTTATTTACTTTACACTATATAATAACTTAATAATTTATTTATTTAAAACA
1 ATTTATTTATTTAATTTATTTACTTTACACTATATAATAA-TTAATAATTTATTTATTTAAAACA
*
16433513 TTTATTTTACACTATATAATAATCAAATA
65 TTTATTTTACACCATATAATAATCAAATA
16433542 ATTTATTTATTTAA-TTATTTTACTTTACACTATATAATAATTTAATAATTTATTTATTTAAAAC
1 ATTTATTTATTTAATTTA-TTTACTTTACACTATATAATAA-TTAATAATTTATTTATTTAAAAC
**
16433606 ATTTATTTTACACCATATAATAATTTAATA
64 ATTTATTTTACACCATATAATAATCAAATA
*
16433636 ATTTATTTATTTAATTTATTTACTTTACACTATATAATAATGGAATAATTTATTTATTTAA
1 ATTTATTTATTTAATTTATTTACTTTACACTATATAATAAT-TAATAATTTATTTATTTAA
16433697 TAATTGGATA
Statistics
Matches: 147, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
93 4 0.03
94 140 0.95
95 3 0.02
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (93 bp):
ATTTATTTATTTAATTTATTTACTTTACACTATATAATAATTAATAATTTATTTATTTAAAACAT
TTATTTTACACCATATAATAATCAAATA
Found at i:16433602 original size:16 final size:16
Alignment explanation
Indices: 16433581--16433726 Score: 56
Period size: 16 Copynumber: 9.2 Consensus size: 16
16433571 CTATATAATA
16433581 ATTTAATAATTTATTT
1 ATTTAATAATTTATTT
*
16433597 ATTTAA-AA--CATTT
1 ATTTAATAATTTATTT
** * * *
16433610 ATTTTACACCATATAATA
1 A-TTTA-ATAATTTATTT
16433628 ATTTAATAATTTATTT
1 ATTTAATAATTTATTT
16433644 A-TT--TAATTTATTT
1 ATTTAATAATTTATTT
* * *
16433657 ACTTTACACT-ATATAATA
1 A-TTTA-A-TAATTTATTT
**
16433675 ATGGAATAATTTATTT
1 ATTTAATAATTTATTT
* *
16433691 ATTTAATAATTGGA-TA
1 ATTTAATAATT-TATTT
*
16433707 ATTGAATAATTTATTT
1 ATTTAATAATTTATTT
16433723 ATTT
1 ATTT
16433727 CACACTATTT
Statistics
Matches: 90, Mismatches: 26, Indels: 28
0.62 0.18 0.19
Matches are distributed among these distances:
13 16 0.18
14 4 0.04
15 9 0.10
16 44 0.49
17 7 0.08
18 9 0.10
19 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (16 bp):
ATTTAATAATTTATTT
Found at i:16433628 original size:141 final size:143
Alignment explanation
Indices: 16433429--16433697 Score: 398
Period size: 141 Copynumber: 1.9 Consensus size: 143
16433419 TGTATTAAAT
** *
16433429 TATAATAATTGAATAATTTATTTATTTATTTAATTTATTTACTTTACACTATATAATAACTTAAT
1 TATAATAATTGAATAATTTATTTATTTA--TAATACATTTACTTTACACCATATAATAACTTAAT
*
16433494 AATTTATTTATTTAAAACATTTATTTTACACTATATAATAATCAAATAATTTATTTATTTAATTA
64 AATTTATTTATTTAAAACATTTACTTTACACTATATAATAATCAAATAATTTATTTATTTAATTA
16433559 TTTTACTTTACACTA
129 TTTTACTTTACACTA
* * *
16433574 TATAATAATTTAATAATTTATTTATTTA-AA-ACATTTATTTTACACCATATAATAATTTAATAA
1 TATAATAATTGAATAATTTATTTATTTATAATACATTTACTTTACACCATATAATAACTTAATAA
*** **
16433637 TTTATTTATTTAATTTATTTACTTTACACTATATAATAATGGAATAATTTATTTATTTAAT
66 TTTATTTATTTAAAACATTTACTTTACACTATATAATAATCAAATAATTTATTTATTTAAT
16433698 AATTGGATAA
Statistics
Matches: 112, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
141 83 0.74
142 2 0.02
145 27 0.24
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.52
Consensus pattern (143 bp):
TATAATAATTGAATAATTTATTTATTTATAATACATTTACTTTACACCATATAATAACTTAATAA
TTTATTTATTTAAAACATTTACTTTACACTATATAATAATCAAATAATTTATTTATTTAATTATT
TTACTTTACACTA
Found at i:16433652 original size:13 final size:14
Alignment explanation
Indices: 16433634--16433662 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
16433624 AATAATTTAA
16433634 TAATTTATTTA-TT
1 TAATTTATTTACTT
16433647 TAATTTATTTACTT
1 TAATTTATTTACTT
16433661 TA
1 TA
16433663 CACTATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (14 bp):
TAATTTATTTACTT
Found at i:16437360 original size:24 final size:24
Alignment explanation
Indices: 16437333--16437381 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
16437323 TAAAGTGATC
16437333 AAGGGTCTCTTTGGATGAACATTT
1 AAGGGTCTCTTTGGATGAACATTT
16437357 AAGGGTCTCTTTGGATGAACATTT
1 AAGGGTCTCTTTGGATGAACATTT
16437381 A
1 A
16437382 TCTTTAGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (24 bp):
AAGGGTCTCTTTGGATGAACATTT
Found at i:16438555 original size:24 final size:24
Alignment explanation
Indices: 16438519--16438569 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
16438509 TACTCCATGA
*
16438519 TTAAGGATATCTTTGGATGGACAT
1 TTAAGGATATCTTTGGATGAACAT
* *
16438543 TTAAGGGTCTCTTTGGATGAACAT
1 TTAAGGATATCTTTGGATGAACAT
16438567 TTA
1 TTA
16438570 TCTTTAGTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (24 bp):
TTAAGGATATCTTTGGATGAACAT
Found at i:16439743 original size:24 final size:24
Alignment explanation
Indices: 16439707--16439757 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
16439697 TACTCCATGA
*
16439707 TTAAGGATATCTTTGGATGGACAT
1 TTAAGGATATCTTTGGATGAACAT
* *
16439731 TTAAGGGTCTCTTTGGATGAACAT
1 TTAAGGATATCTTTGGATGAACAT
16439755 TTA
1 TTA
16439758 TCTTTAGTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (24 bp):
TTAAGGATATCTTTGGATGAACAT
Found at i:16440720 original size:41 final size:41
Alignment explanation
Indices: 16440659--16440861 Score: 250
Period size: 41 Copynumber: 5.0 Consensus size: 41
16440649 TGAAAATAAG
* * *
16440659 ATGTTTCAGACTTTACGTCTAGCGGGC-TTGATGCCGGTG-A
1 ATGTATCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAA
*
16440699 AT-TACTTCAGACTTTATGTCTAGCAGGCTTAGTGCCGGTGAA
1 ATGTA--TCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAA
* *
16440741 ATGTATCAGACTTTATGTCTAGCAGGCTTTGTGCTGATGAA
1 ATGTATCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAA
*
16440782 ATGTATCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGGA
1 ATGTATCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAA
* * * * *
16440823 ATGTATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 ATGTATCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTG
16440862 TTTTATACAA
Statistics
Matches: 143, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 2 0.01
41 133 0.93
42 5 0.03
43 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (41 bp):
ATGTATCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAA
Found at i:16448638 original size:15 final size:15
Alignment explanation
Indices: 16448613--16448647 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
16448603 GACTCTATTT
*
16448613 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
16448627 TAATTAATATTAAGA
1 TAATTAATATTAAGA
16448642 TAATTA
1 TAATTA
16448648 TTAAAGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:16450755 original size:15 final size:14
Alignment explanation
Indices: 16450734--16450769 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
16450724 ATAATCCTTA
*
16450734 ATAATTATCTTAAT
1 ATAATTATCCTAAT
16450748 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
16450763 ATAATTA
1 ATAATTA
16450770 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:16454720 original size:14 final size:14
Alignment explanation
Indices: 16454701--16454727 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16454691 CATGATAAAA
16454701 TAAAATACAAGTGG
1 TAAAATACAAGTGG
16454715 TAAAATACAAGTG
1 TAAAATACAAGTG
16454728 TGCAAGAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (14 bp):
TAAAATACAAGTGG
Found at i:16459567 original size:14 final size:14
Alignment explanation
Indices: 16459548--16459574 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16459538 CATGATAAAA
16459548 TAAAATACAAGTGG
1 TAAAATACAAGTGG
16459562 TAAAATACAAGTG
1 TAAAATACAAGTG
16459575 TGAAAGTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (14 bp):
TAAAATACAAGTGG
Found at i:16461520 original size:3 final size:3
Alignment explanation
Indices: 16461514--16461539 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16461504 GGAGGAGGAG
16461514 GAC GAC GAC GAC GAC GAC GAC GAC GA
1 GAC GAC GAC GAC GAC GAC GAC GAC GA
16461540 TGATGGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.35, T:0.00
Consensus pattern (3 bp):
GAC
Found at i:16464487 original size:17 final size:17
Alignment explanation
Indices: 16464465--16464497 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16464455 TGTTTATATA
*
16464465 TTAATTTTTTATGTATT
1 TTAATTTCTTATGTATT
16464482 TTAATTTCTTATGTAT
1 TTAATTTCTTATGTAT
16464498 ATTTGGCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.67
Consensus pattern (17 bp):
TTAATTTCTTATGTATT
Found at i:16465997 original size:53 final size:53
Alignment explanation
Indices: 16465917--16466022 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
16465907 ACAAACACTC
16465917 TTATAGTCCATTATTCCTAACGTAAGCAAGTTGAATTCTCCCAAATACCTTAG
1 TTATAGTCCATTATTCCTAACGTAAGCAAGTTGAATTCTCCCAAATACCTTAG
16465970 TTATAGTCCATTATTCCTAACGTAAGCAAGTTGAATTCTCCCAAATACCTTAG
1 TTATAGTCCATTATTCCTAACGTAAGCAAGTTGAATTCTCCCAAATACCTTAG
16466023 ACCAATATCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (53 bp):
TTATAGTCCATTATTCCTAACGTAAGCAAGTTGAATTCTCCCAAATACCTTAG
Found at i:16466534 original size:43 final size:43
Alignment explanation
Indices: 16466497--16466591 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 43
16466487 CCGTGTGTCT
16466497 GCCCGTGTGTATATTCGAAATAGGGTCACACGGCCGTGTCGCA
1 GCCCGTGTGTATATTCGAAATAGGGTCACACGGCCGTGTCGCA
* ** * **
16466540 GCCCGTGTGTGTATTCGATGTTGGGTCACACGGCTATGTCGCA
1 GCCCGTGTGTATATTCGAAATAGGGTCACACGGCCGTGTCGCA
*
16466583 GGCCGTGTG
1 GCCCGTGTG
16466592 CGAGACCGTG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.16, C:0.24, G:0.34, T:0.26
Consensus pattern (43 bp):
GCCCGTGTGTATATTCGAAATAGGGTCACACGGCCGTGTCGCA
Found at i:16468075 original size:43 final size:42
Alignment explanation
Indices: 16467992--16468117 Score: 128
Period size: 43 Copynumber: 3.0 Consensus size: 42
16467982 TTCAAGGTAT
* * * *
16467992 GATTTCGTGTAAGACCATGTCTGGGACATTGACATCGATATGA
1 GATTACGTGTAAGACCATGTCTGGGATA-TGGCATTGATATGA
* *
16468035 GATTACGTGTAAGACCCTGTCTGGGATAGTGGCATTGATATGG
1 GATTACGTGTAAGACCATGTCTGGGATA-TGGCATTGATATGA
* * * * *
16468078 GATAACATGTAGGACTATATCTGGGATATGGCATTG-TATG
1 GATTACGTGTAAGACCATGTCTGGGATATGGCATTGATATG
16468118 TGATATATGT
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
41 4 0.06
42 8 0.11
43 58 0.83
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (42 bp):
GATTACGTGTAAGACCATGTCTGGGATATGGCATTGATATGA
Found at i:16471692 original size:21 final size:22
Alignment explanation
Indices: 16471666--16471708 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
16471656 AAGTTGAATT
16471666 TAAAGTTATGAAT-TAT-ATATA
1 TAAAGTT-TGAATGTATGATATA
16471687 TAAAGTTTGAATGTATGATATA
1 TAAAGTTTGAATGTATGATATA
16471709 AGTTCTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (22 bp):
TAAAGTTTGAATGTATGATATA
Found at i:16471707 original size:20 final size:21
Alignment explanation
Indices: 16471666--16471709 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
16471656 AAGTTGAATT
*
16471666 TAAAGTTATGAATTATATATA
1 TAAAGTTATGAATTATAGATA
16471687 TAAAGTT-TGAATGTAT-GATA
1 TAAAGTTATGAAT-TATAGATA
16471707 TAA
1 TAA
16471710 GTTCTTTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (21 bp):
TAAAGTTATGAATTATAGATA
Found at i:16471813 original size:65 final size:66
Alignment explanation
Indices: 16471744--16471958 Score: 189
Period size: 64 Copynumber: 3.4 Consensus size: 66
16471734 ATGAATTATA
* * * * ** *
16471744 TATATATGCACATATGGTTCGAATATATATATT-TAAAGTTCTTGAGTTGTATTTAATGTATGAA
1 TATATATACACATGTGGTTCGAATATATAGATTACAAAGTTCTTGAGCGGAATTTAATGTATGAA
16471808 T
66 T
* *
16471809 TATATATACACATGTGGTTC-AA-ATATAGGTTACAAAGTTTTTGAGCGGAATTTAATGTATGAA
1 TATATATACACATGTGGTTCGAATATATAGATTACAAAGTTCTTGAGCGGAATTTAATGTATGAA
16471872 T
66 T
* * * * * *
16471873 TTTACATACATATGTGGTTCG-A-ATATAGGTTACAAA-TTCTTTGAGCTGAAATTTAATG-CTG
1 TATATATACACATGTGGTTCGAATATATAGATTACAAAGTTC-TTGAGC-GGAATTTAATGTATG
16471934 TAA-
64 -AAT
*
16471937 -AT-TATACATATGTGGTTCGAAT
1 TATATATACACATGTGGTTCGAAT
16471959 GTTTGTTTGC
Statistics
Matches: 126, Mismatches: 17, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
62 16 0.13
63 11 0.09
64 69 0.55
65 30 0.24
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.40
Consensus pattern (66 bp):
TATATATACACATGTGGTTCGAATATATAGATTACAAAGTTCTTGAGCGGAATTTAATGTATGAA
T
Found at i:16471870 original size:64 final size:65
Alignment explanation
Indices: 16471794--16471946 Score: 211
Period size: 64 Copynumber: 2.4 Consensus size: 65
16471784 CTTGAGTTGT
* *
16471794 ATTTAATGTATGAATTATATATACACATGTGGTTCAAATATAGGTTACAAAGTT-TTTGAGC-GG
1 ATTTAATGTATGAATTATACATACACATGTGGTTCAAATATAGGTTACAAA-TTCTTTGAGCTGA
16471857 A
65 A
* * *
16471858 ATTTAATGTATGAATTTTACATACATATGTGGTTCGAATATAGGTTACAAATTCTTTGAGCTGAA
1 ATTTAATGTATGAATTATACATACACATGTGGTTCAAATATAGGTTACAAATTCTTTGAGCTGAA
* *
16471923 ATTTAATGCTGTAAATTATACATA
1 ATTTAATG-TATGAATTATACATA
16471947 TGTGGTTCGA
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
63 2 0.03
64 54 0.69
65 10 0.13
66 12 0.15
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.39
Consensus pattern (65 bp):
ATTTAATGTATGAATTATACATACACATGTGGTTCAAATATAGGTTACAAATTCTTTGAGCTGAA
Found at i:16472146 original size:41 final size:41
Alignment explanation
Indices: 16472088--16472176 Score: 160
Period size: 41 Copynumber: 2.2 Consensus size: 41
16472078 GGCTTAATGC
16472088 CTAGCAGACTTGATGTCGGTGAATTACTTCAGACTTTATGT
1 CTAGCAGACTTGATGTCGGTGAATTACTTCAGACTTTATGT
* *
16472129 TTAGCAGACTTGATGTCGGTGAATTTCTTCAGACTTTATGT
1 CTAGCAGACTTGATGTCGGTGAATTACTTCAGACTTTATGT
16472170 CTAGCAG
1 CTAGCAG
16472177 GCTTTGTGCC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (41 bp):
CTAGCAGACTTGATGTCGGTGAATTACTTCAGACTTTATGT
Found at i:16472190 original size:41 final size:41
Alignment explanation
Indices: 16472088--16472192 Score: 149
Period size: 41 Copynumber: 2.6 Consensus size: 41
16472078 GGCTTAATGC
*
16472088 CTAGCAGACTTGATGTCGGTGAATTACTTCAGACTTTATGT
1 CTAGCAGACTTGATGCCGGTGAATTACTTCAGACTTTATGT
* * *
16472129 TTAGCAGACTTGATGTCGGTGAATTTCTTCAGACTTTATGT
1 CTAGCAGACTTGATGCCGGTGAATTACTTCAGACTTTATGT
*
16472170 CTAGCAGGCTTTG-TGCCGGTGAA
1 CTAGCAGAC-TTGATGCCGGTGAA
16472193 ATGTATCGGG
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 55 0.95
42 3 0.05
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (41 bp):
CTAGCAGACTTGATGCCGGTGAATTACTTCAGACTTTATGT
Found at i:16474987 original size:25 final size:25
Alignment explanation
Indices: 16474953--16475009 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
16474943 CACATAAACT
*
16474953 GGAAGCTCACATGAGCCATGTAACG
1 GGAAGCTCACATGAACCATGTAACG
16474978 GGAAGCTCACATGAACCATGTAACG
1 GGAAGCTCACATGAACCATGTAACG
*
16475003 AGAAGCT
1 GGAAGCT
16475010 TATTTGGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.16
Consensus pattern (25 bp):
GGAAGCTCACATGAACCATGTAACG
Found at i:16477561 original size:15 final size:15
Alignment explanation
Indices: 16477541--16477574 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
16477531 TATCATTTTC
16477541 ATGTTAATTATTAAT
1 ATGTTAATTATTAAT
*
16477556 ATGTTAATTATTATT
1 ATGTTAATTATTAAT
16477571 ATGT
1 ATGT
16477575 AGTGGGTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (15 bp):
ATGTTAATTATTAAT
Found at i:16480388 original size:44 final size:44
Alignment explanation
Indices: 16480325--16480479 Score: 265
Period size: 44 Copynumber: 3.5 Consensus size: 44
16480315 TGAGTACTTT
16480325 TGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
*
16480369 TGATCAGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATC
1 TGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
* *
16480413 TTATCAGTGACAAGTGATGAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
* *
16480457 TGATCAGGGACAAGTGACAAGTG
1 TGATCAGTGACAAGTGATAAGTG
16480480 ATAAATGTGA
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 103 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (44 bp):
TGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
Found at i:16490758 original size:3 final size:3
Alignment explanation
Indices: 16490750--16490792 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
16490740 TCAGTTAAGC
* *
16490750 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAG TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
16490793 TGAATTGGGG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:16493333 original size:12 final size:12
Alignment explanation
Indices: 16493312--16493341 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
16493302 ATTAATTCGG
*
16493312 TTAACTGATCGA
1 TTAACCGATCGA
16493324 TTAACCGATCGA
1 TTAACCGATCGA
16493336 TTAACC
1 TTAACC
16493342 AAATTCAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (12 bp):
TTAACCGATCGA
Found at i:16496494 original size:34 final size:34
Alignment explanation
Indices: 16496455--16496522 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
16496445 TGGCCGGATC
16496455 ATAATGCGAGAAAACTACTTATATTAGTAGTTAA
1 ATAATGCGAGAAAACTACTTATATTAGTAGTTAA
16496489 ATAATGCGAGAAAACTACTTATATTAGTAGTTAA
1 ATAATGCGAGAAAACTACTTATATTAGTAGTTAA
16496523 TTTAAATAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (34 bp):
ATAATGCGAGAAAACTACTTATATTAGTAGTTAA
Found at i:16507736 original size:54 final size:54
Alignment explanation
Indices: 16507654--16507762 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
16507644 CAAACCAGTG
*
16507654 CCCTTGAGAGATGCTTAGGTTTACCAACCATAGTAGAAAGGAACACAAGAAGAA
1 CCCTTGAAAGATGCTTAGGTTTACCAACCATAGTAGAAAGGAACACAAGAAGAA
16507708 CCCTTGAAAGATGCTTAGGTTTACCAACCATAGTAGAAAGGAACACAAGAAGAA
1 CCCTTGAAAGATGCTTAGGTTTACCAACCATAGTAGAAAGGAACACAAGAAGAA
16507762 C
1 C
16507763 TTTTCATATA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.18
Consensus pattern (54 bp):
CCCTTGAAAGATGCTTAGGTTTACCAACCATAGTAGAAAGGAACACAAGAAGAA
Found at i:16510344 original size:12 final size:12
Alignment explanation
Indices: 16510327--16510369 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
16510317 TTTTAATTAT
16510327 TTTAATTATTTC
1 TTTAATTATTTC
16510339 TTTAATT-TTAAT-
1 TTTAATTATT--TC
16510351 TTTAATTATTTC
1 TTTAATTATTTC
16510363 TTTAATT
1 TTTAATT
16510370 TTAATTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
11 3 0.11
12 21 0.78
13 3 0.11
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTAATTATTTC
Found at i:16510382 original size:33 final size:33
Alignment explanation
Indices: 16510304--16510386 Score: 102
Period size: 33 Copynumber: 2.5 Consensus size: 33
16510294 ATTGCGATGA
16510304 CTAATTAATTTAATTTTAATTATTTTAATTATTT
1 CTAATTAATTTAATTTTAATTATTTT-ATTATTT
16510338 CT--TTAATTTTAATTTTAATTATTTCT-TTAATTT
1 CTAATTAA-TTTAATTTTAATTATTT-TATT-ATTT
16510371 -TAATTAATTTAATTTT
1 CTAATTAATTTAATTTT
16510387 CTTGTTCGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
32 7 0.16
33 30 0.68
34 7 0.16
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (33 bp):
CTAATTAATTTAATTTTAATTATTTTATTATTT
Found at i:16510385 original size:24 final size:24
Alignment explanation
Indices: 16510312--16510385 Score: 80
Period size: 24 Copynumber: 3.0 Consensus size: 24
16510302 GACTAATTAA
*
16510312 TTTAATTTTAATTATTTTAATTATTTC
1 TTTAATTTTAATTAATTT-A--ATTTC
16510339 TTTAATTTTAATTTTAA-TT-ATTTC
1 TTTAATTTTAA--TTAATTTAATTTC
16510363 TTTAATTTTAATTAATTTAATTT
1 TTTAATTTTAATTAATTTAATTT
16510386 TCTTGTTCGA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
22 4 0.10
23 2 0.05
24 20 0.48
27 11 0.26
28 2 0.05
29 3 0.07
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTAATTTTAATTAATTTAATTTC
Found at i:16516861 original size:48 final size:48
Alignment explanation
Indices: 16516790--16517022 Score: 331
Period size: 48 Copynumber: 4.9 Consensus size: 48
16516780 CACTGGAGGT
* * * * * * *
16516790 GGCTTCACAACGGGAGGACTTGGGTATACAGGAGGCGTTGGTGTTGGC
1 GGCTTCACAATGGGAGGACTGGGGTAGACGGGAGGCTTTGGAGCTGGC
* * * *
16516838 GGCTTCACAATGGGAGGACTTGGGTATACAGGAGGCTTTGGAACTGGC
1 GGCTTCACAATGGGAGGACTGGGGTAGACGGGAGGCTTTGGAGCTGGC
*
16516886 GGCTTCACAATGGGAGGACTGGGGTAGACGGGAGGCTTTGGAACTGGC
1 GGCTTCACAATGGGAGGACTGGGGTAGACGGGAGGCTTTGGAGCTGGC
*
16516934 GGCTTCACAATGGGAGGACTGGGGTAGACGGGAGGCTTTGGCGCTGGC
1 GGCTTCACAATGGGAGGACTGGGGTAGACGGGAGGCTTTGGAGCTGGC
* *
16516982 GGCTTTACAATAGGAGGACTGGGGTAGACGGGAGGCTTTGG
1 GGCTTCACAATGGGAGGACTGGGGTAGACGGGAGGCTTTGG
16517023 TGGTGGTGAA
Statistics
Matches: 173, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 173 1.00
ACGTcount: A:0.20, C:0.16, G:0.42, T:0.21
Consensus pattern (48 bp):
GGCTTCACAATGGGAGGACTGGGGTAGACGGGAGGCTTTGGAGCTGGC
Found at i:16526902 original size:24 final size:24
Alignment explanation
Indices: 16526875--16526922 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
16526865 AAGATTTAGT
16526875 ATTTATTAGTATAATATATTTGAC
1 ATTTATTAGTATAATATATTTGAC
* *
16526899 ATTTATTAGTATAGTTTATTTGAC
1 ATTTATTAGTATAATATATTTGAC
16526923 TTACTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTATTAGTATAATATATTTGAC
Found at i:16528869 original size:24 final size:24
Alignment explanation
Indices: 16528842--16528889 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
16528832 AAGATTTAGT
16528842 ATTTATTAGTATAATATATTTGAC
1 ATTTATTAGTATAATATATTTGAC
* *
16528866 ATTTATTAGTATAGTTTATTTGAC
1 ATTTATTAGTATAATATATTTGAC
16528890 TTACTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTATTAGTATAATATATTTGAC
Found at i:16531434 original size:19 final size:18
Alignment explanation
Indices: 16531390--16531441 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
16531380 AGTACTCAAT
*
16531390 ATTAATTATA-AAATTTA
1 ATTAAATATATAAATTTA
16531407 ATTAGAATATATAAATTATA
1 ATTA-AATATATAAATT-TA
* *
16531427 TTTAAATATTTAAAT
1 ATTAAATATATAAAT
16531442 ATAAAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 4 0.14
18 5 0.17
19 15 0.52
20 5 0.17
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
ATTAAATATATAAATTTA
Found at i:16531714 original size:22 final size:21
Alignment explanation
Indices: 16531689--16531732 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
16531679 AAGCATATGA
*
16531689 AAATGATTTGGTTATATTCAAT
1 AAATGATTTGGTTA-ATACAAT
16531711 AAATGATTTGGTTAATACAAT
1 AAATGATTTGGTTAATACAAT
16531732 A
1 A
16531733 CTTATATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (21 bp):
AAATGATTTGGTTAATACAAT
Found at i:16531741 original size:22 final size:22
Alignment explanation
Indices: 16531716--16531786 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
16531706 TCAATAAATG
16531716 ATTTGGTTAATACAATACTTAT
1 ATTTGGTTAATACAATACTTAT
* * **
16531738 ATTT-GATAA-GCATATGA-AAAT
1 ATTTGGTTAATACA-AT-ACTTAT
16531759 GATTTGGTTAATACAATACTTAT
1 -ATTTGGTTAATACAATACTTAT
16531782 ATTTG
1 ATTTG
16531787 ATAAGCATAT
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
20 2 0.06
21 8 0.23
22 15 0.43
23 8 0.23
24 2 0.06
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (22 bp):
ATTTGGTTAATACAATACTTAT
Found at i:16531759 original size:44 final size:44
Alignment explanation
Indices: 16531711--16531804 Score: 188
Period size: 44 Copynumber: 2.1 Consensus size: 44
16531701 TATATTCAAT
16531711 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
1 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
16531755 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
1 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
16531799 AAATGA
1 AAATGA
16531805 AAGTCGAGAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (44 bp):
AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
Found at i:16537241 original size:17 final size:17
Alignment explanation
Indices: 16537214--16537259 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
16537204 CCGATATAAT
* * *
16537214 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
*
16537231 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
16537248 AAATATTTTTAA
1 AAATATTTTTAA
16537260 AATACTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:16537257 original size:11 final size:11
Alignment explanation
Indices: 16537243--16537382 Score: 104
Period size: 11 Copynumber: 13.4 Consensus size: 11
16537233 ATTTTTTTAA
16537243 TTTTAAAATAT
1 TTTTAAAATAT
16537254 TTTTAAAATACT
1 TTTTAAAATA-T
** *
16537266 TTTTTTATTAT
1 TTTTAAAATAT
16537277 TTTT--AA-A-
1 TTTTAAAATAT
16537284 TTTTAAAATAT
1 TTTTAAAATAT
16537295 TTTTAAAATACT
1 TTTTAAAATA-T
16537307 TTTT-AAAT-T
1 TTTTAAAATAT
* *
16537316 TTTT---TTAA
1 TTTTAAAATAT
16537324 TTTTAAAATAT
1 TTTTAAAATAT
16537335 TTTTAAAATAT
1 TTTTAAAATAT
16537346 TTTTAAAATACT
1 TTTTAAAATA-T
**
16537358 TTTT-TTA-AT
1 TTTTAAAATAT
16537367 TTTTAAAATAAT
1 TTTTAAAAT-AT
16537379 TTTT
1 TTTT
16537383 TGGTATTTAT
Statistics
Matches: 103, Mismatches: 12, Indels: 27
0.73 0.08 0.19
Matches are distributed among these distances:
7 5 0.05
8 5 0.05
9 13 0.13
10 3 0.03
11 53 0.51
12 24 0.23
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:16537280 original size:41 final size:41
Alignment explanation
Indices: 16537226--16537382 Score: 214
Period size: 41 Copynumber: 3.8 Consensus size: 41
16537216 ATATATTTAT
16537226 TTTTTAAA-T-TTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTAAATTATTTTTTAATTTTAAAATATTTTTAAAATAC
** *
16537265 TTTTTTTATTATTTTTAAATTTTAAAATATTTTTAAAATAC
1 TTTTTAAATTATTTTTTAATTTTAAAATATTTTTAAAATAC
16537306 TTTTTAAATT-TTTTTTAATTTTAAAATATTTTTAAAATA-
1 TTTTTAAATTATTTTTTAATTTTAAAATATTTTTAAAATAC
*
16537345 TTTTTAAAATACTTTTTTTAATTTTTAAAATAATTTTT
1 TTTTTAAATTA--TTTTTTAA-TTTTAAAAT-ATTTTT
16537383 TGGTATTTAT
Statistics
Matches: 104, Mismatches: 7, Indels: 9
0.87 0.06 0.08
Matches are distributed among these distances:
39 15 0.14
40 29 0.28
41 37 0.36
42 8 0.08
43 9 0.09
44 6 0.06
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (41 bp):
TTTTTAAATTATTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:16537288 original size:30 final size:30
Alignment explanation
Indices: 16537254--16537317 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
16537244 TTTAAAATAT
** *
16537254 TTTTAAAATACTTTTTTTATTA-TTTTTAAA
1 TTTTAAAATA-TTTTTAAAATACTTTTTAAA
16537284 TTTTAAAATATTTTTAAAATACTTTTTAAA
1 TTTTAAAATATTTTTAAAATACTTTTTAAA
16537314 TTTT
1 TTTT
16537318 TTTTAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 8 0.27
30 22 0.73
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (30 bp):
TTTTAAAATATTTTTAAAATACTTTTTAAA
Found at i:16537329 original size:17 final size:17
Alignment explanation
Indices: 16537307--16537340 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16537297 TTAAAATACT
* *
16537307 TTTTAAATTTTTTTTAA
1 TTTTAAAATATTTTTAA
16537324 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
16537341 AATATTTTTA
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:16537860 original size:12 final size:12
Alignment explanation
Indices: 16537840--16537877 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
16537830 TTTTGGTCTA
*
16537840 AAATATTTTTTT
1 AAATTTTTTTTT
16537852 AAA-TTTTTTTT
1 AAATTTTTTTTT
16537863 AAATTTTTTTCTT
1 AAATTTTTTT-TT
16537876 AA
1 AA
16537878 TAATAATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 10 0.43
12 9 0.39
13 4 0.17
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (12 bp):
AAATTTTTTTTT
Found at i:16537861 original size:11 final size:11
Alignment explanation
Indices: 16537840--16537872 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
16537830 TTTTGGTCTA
16537840 AAATATTTTTTT
1 AAAT-TTTTTTT
16537852 AAATTTTTTTT
1 AAATTTTTTTT
16537863 AAATTTTTTT
1 AAATTTTTTT
16537873 CTTAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
AAATTTTTTTT
Found at i:16537976 original size:15 final size:15
Alignment explanation
Indices: 16537932--16537977 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 15
16537922 ACAATTAGGT
16537932 TAAAATATTTTAAAAA
1 TAAAAT-TTTTAAAAA
* *
16537948 TAAAA--ATTATAAA
1 TAAAATTTTTAAAAA
16537961 TAAAATTTTTAAAAA
1 TAAAATTTTTAAAAA
16537976 TA
1 TA
16537978 TGTATATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
13 11 0.46
15 8 0.33
16 5 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAAATTTTTAAAAA
Found at i:16545086 original size:18 final size:17
Alignment explanation
Indices: 16545044--16545089 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
16545034 TGAAATAATA
16545044 AATATTT-AA-TTATAT
1 AATATTTAAATTTATAT
16545059 AATAGTTTTAAATTTATAT
1 AATA--TTTAAATTTATAT
16545078 AGATATTTAAAT
1 A-ATATTTAAAT
16545090 ATAAAAAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.15
17 3 0.12
18 9 0.35
19 7 0.27
20 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (17 bp):
AATATTTAAATTTATAT
Found at i:16546711 original size:42 final size:42
Alignment explanation
Indices: 16546636--16546719 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
16546626 CTTACAATTC
* * ** *
16546636 ATGTTGTGAGTTTGAATTATAGGAATTTTCTACTTGTGATGT
1 ATGTCGTGAATTTGAATTATAGGAATTGCCTACTTATGATGT
* *
16546678 ATGTCGTGAATTTGAGTTGTAGGAATTGCCTACTTATGATGT
1 ATGTCGTGAATTTGAATTATAGGAATTGCCTACTTATGATGT
16546720 GTACATGTGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.24, C:0.07, G:0.25, T:0.44
Consensus pattern (42 bp):
ATGTCGTGAATTTGAATTATAGGAATTGCCTACTTATGATGT
Found at i:16548481 original size:25 final size:25
Alignment explanation
Indices: 16548453--16548500 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
16548443 CGAGCATGTA
* *
16548453 ATCGGGAAGCTCTTCTGAGCCATAT
1 ATCGAGAAGCTCATCTGAGCCATAT
*
16548478 ATCGAGAAGCTCATGTGAGCCAT
1 ATCGAGAAGCTCATCTGAGCCAT
16548501 GTAACAGGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (25 bp):
ATCGAGAAGCTCATCTGAGCCATAT
Found at i:16548511 original size:25 final size:24
Alignment explanation
Indices: 16548447--16548513 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 24
16548437 TTCATTCGAG
*
16548447 CATGTAATCGGGAAGCTCTTCTGAGC
1 CATGTAA-C-GGAAGCTCATCTGAGC
* * *
16548473 CATATATCGAGAAGCTCATGTGAGC
1 CATGTAACG-GAAGCTCATCTGAGC
16548498 CATGTAACAGGAAGCT
1 CATGTAAC-GGAAGCT
16548514 TCGGAGAGCC
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
24 1 0.03
25 26 0.79
26 6 0.18
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (24 bp):
CATGTAACGGAAGCTCATCTGAGC
Found at i:16548612 original size:25 final size:25
Alignment explanation
Indices: 16548577--16548640 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
16548567 ATGCGAGCCA
* * *
16548577 ATATCGAGAAGCTTCGGAGAGCTAGT
1 ATATCGGGAAGCTCCGAAGAGCTA-T
16548603 -TATCGGGAAGCTCCGAAGAGCTAT
1 ATATCGGGAAGCTCCGAAGAGCTAT
*
16548627 ATATCGGGATGCTC
1 ATATCGGGAAGCTC
16548641 ATGAAAGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (25 bp):
ATATCGGGAAGCTCCGAAGAGCTAT
Found at i:16551272 original size:15 final size:16
Alignment explanation
Indices: 16551240--16551272 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
16551230 AAAGTTTTTA
*
16551240 TAAAATAACATAATAT
1 TAAAATAACATAAAAT
16551256 TAAAATAA-ATAAAAT
1 TAAAATAACATAAAAT
16551271 TA
1 TA
16551273 TTCTCCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
TAAAATAACATAAAAT
Found at i:16568014 original size:42 final size:42
Alignment explanation
Indices: 16567952--16568082 Score: 176
Period size: 41 Copynumber: 3.2 Consensus size: 42
16567942 ACGCTGTAAT
* * *
16567952 AGGTAAAGTAGTAGCAGCGTTTATGAGAAAAACGCCGCAAAA
1 AGGTCAAGCAGTAGCGGCGTTTATGAGAAAAACGCCGCAAAA
* *
16567994 AGGTCAAGCAGTAGTGGCGTTTATGAGAAAAACGCCAC-AAA
1 AGGTCAAGCAGTAGCGGCGTTTATGAGAAAAACGCCGCAAAA
* * *
16568035 AGGTTAAGCAGTAGCGGCGTTTATGAGAAAAACACTGCAAAA
1 AGGTCAAGCAGTAGCGGCGTTTATGAGAAAAACGCCGCAAAA
16568077 A-GTCAA
1 AGGTCAA
16568083 AGAAAAAATC
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
41 40 0.52
42 37 0.48
ACGTcount: A:0.41, C:0.15, G:0.26, T:0.18
Consensus pattern (42 bp):
AGGTCAAGCAGTAGCGGCGTTTATGAGAAAAACGCCGCAAAA
Found at i:16568076 original size:41 final size:41
Alignment explanation
Indices: 16567937--16568076 Score: 172
Period size: 41 Copynumber: 3.4 Consensus size: 41
16567927 GGCGCTAACG
* * * * *
16567937 GAAAAACGCTGTAATAGGTAAAGTAGTAGCAGCGTTTATGA
1 GAAAAACGCCGCAAAAGGTAAAGCAGTAGCGGCGTTTATGA
* *
16567978 GAAAAACGCCGCAAAAAGGTCAAGCAGTAGTGGCGTTTATGA
1 GAAAAACGCCGC-AAAAGGTAAAGCAGTAGCGGCGTTTATGA
* *
16568020 GAAAAACGCCACAAAAGGTTAAGCAGTAGCGGCGTTTATGA
1 GAAAAACGCCGCAAAAGGTAAAGCAGTAGCGGCGTTTATGA
* *
16568061 GAAAAACACTGCAAAA
1 GAAAAACGCCGCAAAA
16568077 AGTCAAAGAA
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 50 0.59
42 35 0.41
ACGTcount: A:0.41, C:0.15, G:0.26, T:0.18
Consensus pattern (41 bp):
GAAAAACGCCGCAAAAGGTAAAGCAGTAGCGGCGTTTATGA
Found at i:16569234 original size:12 final size:12
Alignment explanation
Indices: 16569217--16569245 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
16569207 TCATGGATTA
16569217 TCTCTGTTTATT
1 TCTCTGTTTATT
16569229 TCTCTGTTTATT
1 TCTCTGTTTATT
16569241 TCTCT
1 TCTCT
16569246 TTTTCCACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.21, G:0.07, T:0.66
Consensus pattern (12 bp):
TCTCTGTTTATT
Found at i:16572028 original size:26 final size:26
Alignment explanation
Indices: 16571997--16572135 Score: 89
Period size: 26 Copynumber: 5.4 Consensus size: 26
16571987 TATATTTTTA
16571997 TTAAATTATATTTAATAATAATTATT
1 TTAAATTATATTTAATAATAATTATT
*
16572023 TTAAATTATATTT--T-AT-AGTATT
1 TTAAATTATATTTAATAATAATTATT
* * *
16572045 ATATATTATGATTT--TAGTAAATTCA-T
1 TTAAATTAT-ATTTAATAAT-AATT-ATT
* * *
16572071 ATAAA-AATATTTAATGTTAAGAATT-TT
1 TTAAATTATATTTAA---TAATAATTATT
16572098 ATTAAATTATATTTAATAATAATTATT
1 -TTAAATTATATTTAATAATAATTATT
16572125 TTAAATTATAT
1 TTAAATTATAT
16572136 CTTATAGTAT
Statistics
Matches: 87, Mismatches: 12, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
22 12 0.14
23 7 0.08
24 6 0.07
25 2 0.02
26 38 0.44
27 4 0.05
28 8 0.09
29 10 0.11
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.52
Consensus pattern (26 bp):
TTAAATTATATTTAATAATAATTATT
Found at i:16572168 original size:102 final size:100
Alignment explanation
Indices: 16571982--16572229 Score: 372
Period size: 102 Copynumber: 2.5 Consensus size: 100
16571972 TAAGTGGGGG
* * *
16571982 AATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTAT
1 AATTATAGAATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATCTTATAGTATTAT
*
16572047 ATATTATGATTTTAGTAAATTCATATAAAAATATTT
66 ATATTATGATTTTAGTAAATTCATAT-AAAATATTA
16572083 AATGT-TAAGAATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATCTTATAGTATT
1 AAT-TAT-AGAATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATCTTATAGTATT
***
16572147 ATATATTATGATTTTAGTAAATTCATATATTTTATTA
64 ATATATTATGATTTTAGTAAATTCATATAAAATATTA
* * *
16572184 AATTATATATTTTTATTAAATAATATTTAATAATAATTATTTTAAA
1 AATTATAGAATTTTATTAAATTATATTTAATAATAATTATTTTAAA
16572230 ATATGATTAA
Statistics
Matches: 134, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
100 38 0.28
101 13 0.10
102 83 0.62
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (100 bp):
AATTATAGAATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATCTTATAGTATTAT
ATATTATGATTTTAGTAAATTCATATAAAATATTA
Found at i:16572197 original size:18 final size:17
Alignment explanation
Indices: 16572157--16572209 Score: 70
Period size: 18 Copynumber: 3.0 Consensus size: 17
16572147 ATATATTATG
*
16572157 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
16572175 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
16572192 ATTTTTATTAAATAATAT
1 A-TTTTATTAAATTATAT
16572210 TTAATAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.16
18 27 0.84
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:16575641 original size:17 final size:18
Alignment explanation
Indices: 16575610--16575643 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16575600 AATTTAACTT
16575610 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
16575628 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
16575644 TTATAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:16575892 original size:21 final size:20
Alignment explanation
Indices: 16575856--16575904 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
16575846 GACCCTGAGG
* * *
16575856 TTTAGGGTTTAGGTTTGAGA
1 TTTAGGATTAAGGTTTAAGA
16575876 TTTACGGATTAAGGTTTAAGA
1 TTTA-GGATTAAGGTTTAAGA
16575897 TTTAGGAT
1 TTTAGGAT
16575905 ATAGGATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.27, C:0.02, G:0.29, T:0.43
Consensus pattern (20 bp):
TTTAGGATTAAGGTTTAAGA
Found at i:16575958 original size:28 final size:28
Alignment explanation
Indices: 16575925--16575984 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
16575915 TAGATTTGGA
* *
16575925 GTTTAGGGTTC-ATGTTTATGGTTCAAGG
1 GTTTAGGGTTCGA-GTTCAAGGTTCAAGG
16575953 GTTTAGGGTTCGAGTTCAAGGTTCAAGG
1 GTTTAGGGTTCGAGTTCAAGGTTCAAGG
16575981 GTTT
1 GTTT
16575985 TGGTTTATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.18, C:0.08, G:0.33, T:0.40
Consensus pattern (28 bp):
GTTTAGGGTTCGAGTTCAAGGTTCAAGG
Found at i:16576012 original size:21 final size:21
Alignment explanation
Indices: 16575972--16576017 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
16575962 TCGAGTTCAA
* *
16575972 GGTTCAAGGGTTTTGGTTTATG
1 GGTTCAAGGATTTAGGTTTA-G
16575994 GGTTC-AGGATTTAGGTTTAG
1 GGTTCAAGGATTTAGGTTTAG
16576014 GGTT
1 GGTT
16576018 TTATATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 12 0.55
22 5 0.23
ACGTcount: A:0.15, C:0.04, G:0.37, T:0.43
Consensus pattern (21 bp):
GGTTCAAGGATTTAGGTTTAG
Found at i:16577477 original size:31 final size:31
Alignment explanation
Indices: 16577439--16577504 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
16577429 AATTAAAATA
*
16577439 AAAATTAAAAAATGTATTTTAAAAATATTTT
1 AAAATTAAAAAAAGTATTTTAAAAATATTTT
* *
16577470 AAAATTAAAAAAAGTATTTTAAAATTTTTTT
1 AAAATTAAAAAAAGTATTTTAAAAATATTTT
16577501 AAAA
1 AAAA
16577505 AAATTTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (31 bp):
AAAATTAAAAAAAGTATTTTAAAAATATTTT
Found at i:16577522 original size:15 final size:15
Alignment explanation
Indices: 16577502--16577552 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
16577492 AATTTTTTTA
16577502 AAAAAATTTAAAATT
1 AAAAAATTTAAAATT
*
16577517 AAAAAAATTAAAA--
1 AAAAAATTTAAAATT
*
16577530 AAAAGTATTTTAAAATT
1 AAAA--AATTTAAAATT
16577547 AAAAAA
1 AAAAAA
16577553 ATAAAAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
13 4 0.14
15 20 0.71
17 4 0.14
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (15 bp):
AAAAAATTTAAAATT
Found at i:16577527 original size:25 final size:25
Alignment explanation
Indices: 16577499--16577565 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 25
16577489 TAAAATTTTT
16577499 TTAAAAAAATTTAAAATTAAAAAAA
1 TTAAAAAAATTTAAAATTAAAAAAA
16577524 TTAAAAAAAAGTATTTTAAAATTAAAAAAA
1 TT--AAAAAA--A-TTTAAAATTAAAAAAA
*
16577554 -TAAAAATATTTA
1 TTAAAAAAATTTA
16577566 TTATTCGGGC
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
24 4 0.11
25 3 0.08
27 11 0.31
29 2 0.06
30 16 0.44
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.31
Consensus pattern (25 bp):
TTAAAAAAATTTAAAATTAAAAAAA
Found at i:16578777 original size:17 final size:16
Alignment explanation
Indices: 16578737--16578780 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
16578727 TAATAGAATA
16578737 AATTTAGTGTTAATTGT
1 AATTTAGT-TTAATTGT
* *
16578754 AAATTAGTTTAATTTT
1 AATTTAGTTTAATTGT
16578770 ACATTTAGTTT
1 A-ATTTAGTTT
16578781 GTCAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (16 bp):
AATTTAGTTTAATTGT
Found at i:16579226 original size:31 final size:29
Alignment explanation
Indices: 16579159--16579232 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 29
16579149 ATATATAAAT
* *
16579159 TTTAATTTGGTACAATTATAAACGTGAAA
1 TTTAATTTGGTTCAAATATAAACGTGAAA
* *
16579188 TTCTAATTATGGTTCAAATATATACTTGAAA
1 TT-TAATT-TGGTTCAAATATAAACGTGAAA
16579219 CTTTAATTTTGGTT
1 -TTTAA-TTTGGTT
16579233 TAATCACACA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
29 2 0.05
30 5 0.14
31 26 0.70
32 4 0.11
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (29 bp):
TTTAATTTGGTTCAAATATAAACGTGAAA
Found at i:16579728 original size:26 final size:26
Alignment explanation
Indices: 16579670--16579722 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
16579660 ACAGTAAATA
*
16579670 TATTATTATAAGGATATTTTTTATTT
1 TATTATTATAAGGATATTTATTATTT
* *
16579696 TATTATTATAAGGGTGTTTATTATTT
1 TATTATTATAAGGATATTTATTATTT
16579722 T
1 T
16579723 TATATTGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.60
Consensus pattern (26 bp):
TATTATTATAAGGATATTTATTATTT
Found at i:16585033 original size:13 final size:13
Alignment explanation
Indices: 16585015--16585078 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
16585005 AGTTTGGCAA
16585015 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
16585028 TGCTTTAGAAAAG
1 TGCTTTTGAAAAG
* *
16585041 TGCTGTGGACAAA-
1 TGCTTTTGA-AAAG
* *
16585054 TGTTTTTGAGAAG
1 TGCTTTTGAAAAG
16585067 TGCTTTTGAAAA
1 TGCTTTTGAAAA
16585079 ATTTGAGTGT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
12 2 0.05
13 35 0.88
14 3 0.08
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:16589303 original size:24 final size:24
Alignment explanation
Indices: 16589276--16589335 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 24
16589266 CTTGAAAGAC
*
16589276 CATCCCGTTATTAGCTCTCATGAG
1 CATCCCGTTATTAGCTCTCACGAG
* *
16589300 CATCCCGATATTTGGCTCTCACGAG
1 CATCCCGTTA-TTAGCTCTCACGAG
*
16589325 CTTCCCGTTAT
1 CATCCCGTTAT
16589336 ATGGTTATTG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 10 0.33
25 20 0.67
ACGTcount: A:0.18, C:0.32, G:0.17, T:0.33
Consensus pattern (24 bp):
CATCCCGTTATTAGCTCTCACGAG
Found at i:16589589 original size:25 final size:25
Alignment explanation
Indices: 16589550--16589598 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
16589540 TACAACTCTT
*
16589550 ATGAGCTTCCCGTTACGTGGCTCAC
1 ATGAGCTTCCCGTTACATGGCTCAC
** *
16589575 ATGAGCTTCTTGTTATATGGCTCA
1 ATGAGCTTCCCGTTACATGGCTCA
16589599 AAAGAGAGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.35
Consensus pattern (25 bp):
ATGAGCTTCCCGTTACATGGCTCAC
Found at i:16592016 original size:24 final size:24
Alignment explanation
Indices: 16591967--16592019 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
16591957 TTAAACAAAG
**
16591967 ACAAATGTAATGCATAGGTGACGT
1 ACAAATGTAATAAATAGGTGACGT
*
16591991 ACAAATGTAATAAATTATGTGA-GT
1 ACAAATGTAATAAA-TAGGTGACGT
16592015 ACAAA
1 ACAAA
16592020 AGTGTATATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.26
Consensus pattern (24 bp):
ACAAATGTAATAAATAGGTGACGT
Found at i:16592334 original size:16 final size:16
Alignment explanation
Indices: 16592313--16592345 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
16592303 AAATAAAGTA
*
16592313 AAAGAATAAAAGAAAC
1 AAAGAAGAAAAGAAAC
16592329 AAAGAAGAAAAGAAAC
1 AAAGAAGAAAAGAAAC
16592345 A
1 A
16592346 GAGACCATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAGAAGAAAAGAAAC
Found at i:16596201 original size:8 final size:8
Alignment explanation
Indices: 16596177--16596301 Score: 53
Period size: 8 Copynumber: 15.1 Consensus size: 8
16596167 ATTATTTTGA
16596177 AAATATAT
1 AAATATAT
16596185 AAA-ATAT
1 AAATATAT
16596192 AAATATAT
1 AAATATAT
*
16596200 AAAATCCTAT
1 -AAAT-ATAT
*
16596210 AACATATGTAAA
1 AA-ATA--T-AT
16596222 AAATATAT
1 AAATATAT
16596230 AAATATAT
1 AAATATAT
16596238 AAA-AGCGTAT
1 AAATA---TAT
* *
16596248 AATTTTAT
1 AAATATAT
16596256 AAATATAT
1 AAATATAT
* *
16596264 -ATTATAA
1 AAATATAT
16596271 AAAT-TAT
1 AAATATAT
16596278 -AATATAT
1 AAATATAT
* *
16596285 AAGTTTAT
1 AAATATAT
*
16596293 AAAAATAT
1 AAATATAT
16596301 A
1 A
16596302 TTATAAATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 28
0.66 0.13 0.21
Matches are distributed among these distances:
6 3 0.03
7 18 0.21
8 41 0.48
9 7 0.08
10 10 0.12
11 4 0.05
12 3 0.03
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (8 bp):
AAATATAT
Found at i:16596228 original size:18 final size:17
Alignment explanation
Indices: 16596179--16596241 Score: 54
Period size: 19 Copynumber: 3.5 Consensus size: 17
16596169 TATTTTGAAA
*
16596179 ATATATAAAATATAAAT
1 ATATAAAAAATATAAAT
**
16596196 ATATAAAATCCTATAACAT
1 ATATAAAA-AATATAA-AT
*
16596215 ATGTAAAAAATATATAAAT
1 ATAT-AAAAA-ATATAAAT
16596234 ATATAAAA
1 ATATAAAA
16596242 GCGTATAATT
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
17 7 0.20
18 9 0.26
19 10 0.29
20 9 0.26
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (17 bp):
ATATAAAAAATATAAAT
Found at i:16596312 original size:21 final size:21
Alignment explanation
Indices: 16596265--16596325 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 21
16596255 TAAATATATA
*
16596265 TTATAAAAATTATAATATATAAGT
1 TTATAAAAA-TAT-AT-TATAAAT
16596289 TTATAAAAATATATTATAAAT
1 TTATAAAAATATATTATAAAT
*
16596310 TTAGAAAATATATATT
1 TTATAAAA-ATATATT
16596326 TGTTAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.38
22 9 0.26
23 3 0.09
24 9 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (21 bp):
TTATAAAAATATATTATAAAT
Found at i:16605643 original size:126 final size:126
Alignment explanation
Indices: 16605414--16606342 Score: 709
Period size: 141 Copynumber: 6.9 Consensus size: 126
16605404 AGACATACTA
* * ** * *
16605414 TTGGACAAAGCCAACTATTATTTAAGTATTGCCTTAGGCATGTATATACCAACCCTTATACAAAG
1 TTGGACAAAGCTAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAG
* * *
16605479 AGTTGGCCAAAGCATATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCATAGTG
66 AGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGCCATAGTG
* * * *
16605540 TTGGACAAAGCTGACTCTTATTGAAACGTTTCCTTAGGCATGCATATCCCAACCCTTATACAAAG
1 TTGGACAAAGCTAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAG
* * *
16605605 AGTTGGCCAAAGTGTATGTTGGCAAGTCTATCCTAACACTTAGGAAAGTGTCAGCCCAAAAGTGT
66 AGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGT-TG-CC--------
16605670 AGGCGTAGTG
121 A----TAGTG
* * * *
16605680 TTGGACAAAG-TCGACTCTTATTTAAGCGTTGCCTTAAGAATGCATATCCTAACCCTTATACATA
1 TTGGACAAAGCT-AACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACA-A
* * * *** **
16605744 A-AGTTGACCAAAGCGTATGTCT-GCAAGTCTATCCCAACACTTAGGAAAATGTCGTTTTAGAA
64 AGAGTTGGCCAAAGCGTATGT-TGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGCCATAGTG
* * * *
16605806 CTGGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGACATGCATACCCCAACCCTTATACAAAG
1 TTGGACAAAGCTAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAG
* * * * *
16605871 AGTTGGCCAGAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAATGTAGCCCCAAAAGTTT
66 AGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTG--CC-ATAG--T
16605936 CG
126 -G
* * * * * *
16605938 TATTAGGACTACACAAAAACCAACTCTTATTTAAGCGTTGTCTTAGGCATACGTATCTCAACCCT
1 --TT-GG-----AC-AAAGCTAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCT
* * *
16606003 TATGCAAAGAGTTGGCCAAAGCGTATGCTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCTCCC
57 TATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGT-T-GC
* *
16606068 CAAAAATGTCATC
120 C--ATA-G---TG
*
16606081 TTAGGACTACACAAAAG-TCAACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCAACCCTT
1 TT-GG-----AC-AAAGCT-AACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTT
* * *
16606145 ATACAAAGAGTTGACCAAAGCGTATGTTGGCAAGTCTATCCCAACGCTTAGGAAAGTGTCGCCCC
58 ATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTG--CC
*
16606210 AGAAGTGTCG
121 A-TA--GT-G
* *
16606220 TCTTAGGCCTAGACAAAGCCAACTCTTA-TTAAGTGTTGCCTTAGGCATGCATATCCCAACCCTT
1 --TT--G----GACAAAGCTAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTT
* * * * *
16606284 ATACAAAGAGTTGGTCAAAGCGTATGTTGATCAA-TTTATCTCAACATTTAGGAAAGTGT
58 ATACAAAGAGTTGGCCAAAGCGTATGTTG-GCAAGTCTATCCCAACACTTAGGAAAGTGT
16606343 CACCCCAAAA
Statistics
Matches: 657, Mismatches: 91, Indels: 97
0.78 0.11 0.11
Matches are distributed among these distances:
125 3 0.00
126 205 0.31
127 1 0.00
128 1 0.00
129 2 0.00
134 1 0.00
135 2 0.00
136 1 0.00
138 1 0.00
139 85 0.13
140 123 0.19
141 224 0.34
142 5 0.01
143 1 0.00
144 1 0.00
146 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (126 bp):
TTGGACAAAGCTAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAG
AGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGCCATAGTG
Found at i:16605775 original size:140 final size:140
Alignment explanation
Indices: 16605543--16606366 Score: 918
Period size: 141 Copynumber: 6.0 Consensus size: 140
16605533 CATAGTGTTG
** * * *
16605543 GACAAAGCTGACTCTTATTGAAACGTTTCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
* * *
16605608 TGGCCAAAGTGTATGTTGGCAAGTCTATCCTAACACTTAGGAAAGTGTCAGCCCAAAAGTGTAGG
66 TGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGTGTAGT
* * *
16605673 CGTAGTG-TTG
131 CTTAG-GACTA
* * * * *
16605683 GACAAAGTCGACTCTTATTTAAGCGTTGCCTTAAGAATGCATATCCTAACCCTTATACATAA-AG
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACA-AAGAG
* *
16605747 TTGACCAAAGCGTATGTCT-GCAAGTCTATCCCAACACTTAGGAAAATGT-----C------GT-
65 TTGGCCAAAGCGTATGT-TGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGTGTA
* *
16605799 -T-TTAGAACTG
129 GTCTTAGGACTA
* *
16605809 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGACATGCATACCCCAACCCTTATACAAAGAGT
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
* * * * *
16605874 TGGCCAGAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAATGT-AGCCCCAAAAGTTTCG
66 TGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAG-CCCAAAAGTGTAG
*
16605938 TATTAGGACTA
130 TCTTAGGACTA
* * * * * * *
16605949 CACAAAAACCAACTCTTATTTAAGCGTTGTCTTAGGCATACGTATCTCAACCCTTATGCAAAGAG
1 GAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAG
* ** *
16606014 TTGGCCAAAGCGTATGCTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCTCCCCAAAAATGTCA
65 TTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGTGT-A
16606079 -TCTTAGGACTA
129 GTCTTAGGACTA
* * *
16606090 CACAAAAGTCAACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAG
1 GAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAG
* * * *
16606155 TTGACCAAAGCGTATGTTGGCAAGTCTATCCCAACGCTTAGGAAAGTGTC-GCCCCAGAAGTGTC
65 TTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAG-CCCAAAAGTGTA
*
16606219 GTCTTAGGCCTA
129 GTCTTAGGACTA
*
16606231 GACAAAGCCAACTCTTA-TTAAGTGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
* * * * * * *
16606295 TGGTCAAAGCGTATGTTGATCAA-TTTATCTCAACATTTAGGAAAGTGTCACCCCAAAAGTGTCG
66 TGGCCAAAGCGTATGTTG-GCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGTGTAG
16606359 TCTTAGGA
130 TCTTAGGA
16606367 TTGTTTTGTT
Statistics
Matches: 582, Mismatches: 76, Indels: 53
0.82 0.11 0.07
Matches are distributed among these distances:
125 3 0.01
126 103 0.18
129 2 0.00
131 1 0.00
135 1 0.00
137 1 0.00
139 103 0.18
140 121 0.21
141 247 0.42
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (140 bp):
GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
TGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGTGTAGT
CTTAGGACTA
Found at i:16605890 original size:266 final size:267
Alignment explanation
Indices: 16605417--16606343 Score: 1032
Period size: 266 Copynumber: 3.4 Consensus size: 267
16605407 CATACTATTG
* ** *
16605417 GACAAAGCCAACTATTATTTAAGTATTGCCTTAGGCATGTATATACC-AACCCTTATACAAAGAG
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT-CCTAACCCTTATACAAAGAG
* * *** ***
16605481 TTGGCCAAAGCATATGT-TGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCATAGTGTTGGA
65 TTGGCCAAAGCGTATGTCTG-CAAGTCTATCCCAACACTTAGGAAAGTGTCGTTTTAGAACTGGA
** * * *
16605545 CAAAGCTGACTCTTATTGAAACGTTTCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTG
129 CAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTG
* * * *
16605610 GCCAAAGTGTATGTTGGCAAGTCTATCCTAACACTTAGGAAAGTGTCAG-CCCAAAAGTGTAGGC
194 GCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCCAAAAGTGTCGTC
* * *
16605674 GTAGTG-TTG
259 TTAG-GACTA
* * * *
16605683 GACAAAGTCGACTCTTATTTAAGCGTTGCCTTAAGAATGCATATCCTAACCCTTATACATAA-AG
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCTAACCCTTATACA-AAGAG
* *
16605747 TTGACCAAAGCGTATGTCTGCAAGTCTATCCCAACACTTAGGAAAATGTCGTTTTAGAACTGGAC
65 TTGGCCAAAGCGTATGTCTGCAAGTCTATCCCAACACTTAGGAAAGTGTCGTTTTAGAACTGGAC
* *
16605812 AAAGCCAACTCTTATTTAAGCGTTGCCTTAGACATGCATACCCCAACCCTTATACAAAGAGTTGG
130 AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGG
* * * * *
16605877 CCAGAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAATGT-AGCCCCAAAAGTTTCGTAT
195 CCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCCAAAAGTGTCGTCT
16605941 TAGGACTA
260 TAGGACTA
* * * * * *
16605949 CACAAAAACCAACTCTTATTTAAGCGTTGTCTTAGGCATACGTAT-CTCAACCCTTATGCAAAGA
1 GAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCT-AACCCTTATACAAAGA
16606013 GTTGGCCAAAGCGTATG-CTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCTCCCCAAAAATGT
64 GTTGGCCAAAGCGTATGTCT-GCAAGTCTATCCCAACACTTAGGAAAGTG--T---C------GT
* ** * *
16606077 CATCTTAGGACTACACAAAAGTCAACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCAACC
117 --T-TTAGAACTGGAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACC
* *
16606142 CTTATACAAAGAGTTGACCAAAGCGTATGTTGGCAAGTCTATCCCAACGCTTAGGAAAGTGTC-G
178 CTTATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAG
* *
16606206 CCCCAGAAGTGTCGTCTTAGGCCTA
243 CCCCAAAAGTGTCGTCTTAGGACTA
* *
16606231 GACAAAGCCAACTCTTA-TTAAGTGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCTAACCCTTATACAAAGAGT
* * * *
16606295 TGGTCAAAGCGTATGT-TGATCAA-TTTATCTCAACATTTAGGAAAGTGTC
66 TGGCCAAAGCGTATGTCTG--CAAGTCTATCCCAACACTTAGGAAAGTGTC
16606344 ACCCCAAAAG
Statistics
Matches: 555, Mismatches: 77, Indels: 49
0.81 0.11 0.07
Matches are distributed among these distances:
265 5 0.01
266 223 0.40
267 93 0.17
269 1 0.00
272 1 0.00
275 1 0.00
278 3 0.01
279 1 0.00
280 76 0.14
281 26 0.05
282 125 0.23
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (267 bp):
GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCTAACCCTTATACAAAGAGT
TGGCCAAAGCGTATGTCTGCAAGTCTATCCCAACACTTAGGAAAGTGTCGTTTTAGAACTGGACA
AAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGC
CAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCCAAAAGTGTCGTCTT
AGGACTA
Found at i:16607907 original size:12 final size:13
Alignment explanation
Indices: 16607890--16607918 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16607880 GCATTTTTTA
16607890 AAATTTT-AAAAT
1 AAATTTTGAAAAT
16607902 AAATTTTGAAAAT
1 AAATTTTGAAAAT
16607915 AAAT
1 AAAT
16607919 AAATTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
AAATTTTGAAAAT
Found at i:16608750 original size:27 final size:27
Alignment explanation
Indices: 16608714--16608781 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 27
16608704 TTAACATTAT
* * *
16608714 TATTA-AAAAATAAAATATGTTATTAAA
1 TATTATAAAAA-AAATTAAGTTAATAAA
16608741 TATTATAAAAAAAATTTAAGTTAATAAA
1 TATTATAAAAAAAA-TTAAGTTAATAAA
*
16608769 CATTATAAAAAAA
1 TATTATAAAAAAA
16608782 GATTTTAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.23
28 27 0.77
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (27 bp):
TATTATAAAAAAAATTAAGTTAATAAA
Found at i:16608763 original size:28 final size:29
Alignment explanation
Indices: 16608732--16608786 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
16608722 AATAAAATAT
* *
16608732 GTTATTAAATATTATAAAAAAA-ATTTAA
1 GTTAATAAACATTATAAAAAAAGATTTAA
16608760 GTTAATAAACATTATAAAAAAAGATTT
1 GTTAATAAACATTATAAAAAAAGATTT
16608787 TAACATCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.36
Consensus pattern (29 bp):
GTTAATAAACATTATAAAAAAAGATTTAA
Found at i:16609244 original size:17 final size:16
Alignment explanation
Indices: 16609211--16609253 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
16609201 TCAATAATGT
*
16609211 TATTATTTTAATGTTA
1 TATTATTTTAATATTA
*
16609227 TTTTATTTATAATATTA
1 TATTATTT-TAATATTA
16609244 TATTATTTTA
1 TATTATTTTA
16609254 GTTTATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
TATTATTTTAATATTA
Found at i:16609270 original size:23 final size:22
Alignment explanation
Indices: 16609224--16609270 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
16609214 TATTTTAATG
*
16609224 TTATTTTATTTATAATATTATA
1 TTATTTTATTTATAATAATATA
16609246 TTATTTTAGTTTATAA-AATACTA
1 TTATTTTA-TTTATAATAATA-TA
16609269 TT
1 TT
16609271 TAATATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATTTTATTTATAATAATATA
Found at i:16610368 original size:15 final size:15
Alignment explanation
Indices: 16610350--16610415 Score: 71
Period size: 15 Copynumber: 4.5 Consensus size: 15
16610340 TTATTTAAAA
16610350 TAAAAATTTTAAT-T
1 TAAAAATTTTAATAT
* *
16610364 TTAAAATTTTAAAAT
1 TAAAAATTTTAATAT
* *
16610379 AAAAAATTATAATAT
1 TAAAAATTTTAATAT
* *
16610394 TAAATATTTAAATAT
1 TAAAAATTTTAATAT
16610409 TAAAAAT
1 TAAAAAT
16610416 ATTTTTATTT
Statistics
Matches: 40, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
14 11 0.28
15 29 0.73
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAAAATTTTAATAT
Found at i:16610383 original size:14 final size:14
Alignment explanation
Indices: 16610343--16610383 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
16610333 ATTAAATTTA
16610343 TTTAAAATAAAAAT
1 TTTAAAATAAAAAT
** *
16610357 TTTAATTTTAAAAT
1 TTTAAAATAAAAAT
16610371 TTTAAAATAAAAA
1 TTTAAAATAAAAA
16610384 ATTATAATAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTTAAAATAAAAAT
Found at i:16610396 original size:29 final size:28
Alignment explanation
Indices: 16610341--16610415 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
16610331 GAATTAAATT
* *
16610341 TATTTAAAATAAAAATTTTAATTTTAAA
1 TATTTAAAATAAAAATTATAATATTAAA
16610369 -ATTTTAAAATAAAAAATTATAATATTAAA
1 TA-TTTAAAAT-AAAAATTATAATATTAAA
16610398 TATTTAAATATTAAAAAT
1 TATTTAAA-A-TAAAAAT
16610416 ATTTTTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
27 1 0.03
28 8 0.20
29 22 0.55
30 8 0.20
31 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
TATTTAAAATAAAAATTATAATATTAAA
Found at i:16610641 original size:19 final size:18
Alignment explanation
Indices: 16610590--16610653 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 18
16610580 TAAAATGTAT
16610590 AATTGAAAATTTTA-AAA
1 AATTGAAAATTTTATAAA
*
16610607 AGTT-AAAATAATTTATAAA
1 AATTGAAAAT--TTTATAAA
*
16610626 AATTGAAAATTGTTATACA
1 AATTGAAAATT-TTATAAA
*
16610645 AATTTAAAA
1 AATTGAAAA
16610654 AAAAGGAACT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 5 0.13
17 3 0.08
18 5 0.13
19 20 0.53
20 5 0.13
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (18 bp):
AATTGAAAATTTTATAAA
Found at i:16613847 original size:46 final size:46
Alignment explanation
Indices: 16613785--16613879 Score: 163
Period size: 46 Copynumber: 2.1 Consensus size: 46
16613775 CCAACCAACC
* *
16613785 ACACATTGGCCTCTATGCATTCTCAAGAGCAACAATAATAGAGACA
1 ACACATTAGCCCCTATGCATTCTCAAGAGCAACAATAATAGAGACA
*
16613831 ACACATTAGCCCCTATGCATTCTCAAGAGTAACAATAATAGAGACA
1 ACACATTAGCCCCTATGCATTCTCAAGAGCAACAATAATAGAGACA
16613877 ACA
1 ACA
16613880 ATGGGCAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.21
Consensus pattern (46 bp):
ACACATTAGCCCCTATGCATTCTCAAGAGCAACAATAATAGAGACA
Found at i:16616363 original size:167 final size:167
Alignment explanation
Indices: 16616084--16616391 Score: 499
Period size: 167 Copynumber: 1.8 Consensus size: 167
16616074 ATTTCATTAC
* * *
16616084 AAATGATATCTTAAGTAAGCAACTCAATACAATGCCCTTTTTCATATCTAATCTAATCTCAACCC
1 AAATGATATCCTAAGTAAGCAACTCAATACAATGCCCTTCTTCATATCTAATCCAATCTCAACCC
* * * * *
16616149 TATTGTTGATGCGGACTCCCATTATAGAAATTAATTCTTTAATATTCTCATATTTCTTAAATTGT
66 TATTGTTAATACAGACTCCCATTATAAAAATTAATTCTTTAATATTCTCACATTTCTTAAATTGT
16616214 AAATTTCACATGCTTTATATTATCCGATGAACACTGT
131 AAATTTCACATGCTTTATATTATCCGATGAACACTGT
16616251 AAATGATATCCTAAGTAAGCAACTCAATACAATGCCCTTCTTCATATCTAATCCAATCTCAACCC
1 AAATGATATCCTAAGTAAGCAACTCAATACAATGCCCTTCTTCATATCTAATCCAATCTCAACCC
* * * * *
16616316 TATTGTTAATATAGACTCTCATTATAAAAATTAATTCTTTCATATTCTCCCATTTCTTAACTTGT
66 TATTGTTAATACAGACTCCCATTATAAAAATTAATTCTTTAATATTCTCACATTTCTTAAATTGT
16616381 AAATTTCACAT
131 AAATTTCACAT
16616392 TTCACATAAT
Statistics
Matches: 128, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
167 128 1.00
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (167 bp):
AAATGATATCCTAAGTAAGCAACTCAATACAATGCCCTTCTTCATATCTAATCCAATCTCAACCC
TATTGTTAATACAGACTCCCATTATAAAAATTAATTCTTTAATATTCTCACATTTCTTAAATTGT
AAATTTCACATGCTTTATATTATCCGATGAACACTGT
Found at i:16621953 original size:42 final size:42
Alignment explanation
Indices: 16621890--16621973 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
16621880 ACCTCAAGAA
* *
16621890 ATCCGGCAAGCCAGCGATCAGCATTTTCCACCAACTCATTAC
1 ATCCGGCAACCCAGCGATCAGCATTTCCCACCAACTCATTAC
* * * *
16621932 ATCCGGCAACCCAGCGGTCAGCGTTTCCCACCCACTCGTTAC
1 ATCCGGCAACCCAGCGATCAGCATTTCCCACCAACTCATTAC
16621974 GATGCATGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.24, C:0.39, G:0.17, T:0.20
Consensus pattern (42 bp):
ATCCGGCAACCCAGCGATCAGCATTTCCCACCAACTCATTAC
Found at i:16625616 original size:54 final size:55
Alignment explanation
Indices: 16625552--16625660 Score: 157
Period size: 55 Copynumber: 2.0 Consensus size: 55
16625542 GGTGGAGATG
* * *
16625552 TTAGAAATTAGAAAAA-AAAGGACAAATTTTATCAGATTAATTCTTAAGTCTGGT
1 TTAGAAATTAGAAAAAGAAAGGACAAATTTGATCAGATGAATTCATAAGTCTGGT
* * *
16625606 TTAGAAATTAGAAAAAGAAAGGACAAGTTTGATGAGATGAATTCATAAGTGTGGT
1 TTAGAAATTAGAAAAAGAAAGGACAAATTTGATCAGATGAATTCATAAGTCTGGT
16625661 AAATATAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
54 16 0.33
55 32 0.67
ACGTcount: A:0.44, C:0.06, G:0.20, T:0.30
Consensus pattern (55 bp):
TTAGAAATTAGAAAAAGAAAGGACAAATTTGATCAGATGAATTCATAAGTCTGGT
Found at i:16627014 original size:18 final size:19
Alignment explanation
Indices: 16626993--16627031 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
16626983 GGTATTTTAT
*
16626993 TAAAATATTA-CAAAAAAA
1 TAAAATAATATCAAAAAAA
*
16627011 TAAAATAATATCAAAATAA
1 TAAAATAATATCAAAAAAA
16627030 TA
1 TA
16627032 TTAACTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (19 bp):
TAAAATAATATCAAAAAAA
Found at i:16627726 original size:152 final size:151
Alignment explanation
Indices: 16627544--16628557 Score: 1069
Period size: 152 Copynumber: 6.7 Consensus size: 151
16627534 AAAATTGTAC
* * * *
16627544 ATTTAAAAAATACTCTA-AATTAATAAATTTCAAACATAATGTGCTAAAATAATGTAAAATAATA
1 ATTTAAAAAACACACAATAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
*
16627608 AAATTAGAAAATATGATA-TTTTTT-AAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGG
66 AAATTAGAAAATA-GATATTTTTTTGAAAGTAATAAAAT-CGG-GAAAAAAATACGAACAAAGGG
* *
16627671 CCGAAGTAAGGGTTTTTTAACAATTT
128 CCGAAATAAGGGTTTTTTTA-AA-TT
* * * *
16627697 TTTTAAAAAA-AGA-AATAATTAATACATTTCAAACATAATGTACTAAAATAATTTAAAA-AATA
1 ATTTAAAAAACACACAATAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
* * **
16627759 AAA-TATGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGAGAAAAAAATACGAGTAAAGG
66 AAATTA-GAAAAT-AGATATTTTT-TTGAAAGTAAT-AAAATCGGGAAAAAAATACGAACAAAGG
*
16627823 GTCGAAATAAGGGTTTTTTTAAATT
127 GCCGAAATAAGGGTTTTTTTAAATT
* *
16627848 ATTTAAAAAACACACTAA-ATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
1 ATTTAAAAAACACAC-AATAATTA-ATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
* *
16627912 TAAAATTAGAAAATAG-TATATTTTTTAAAAGTAATAAAATTCGGG-AAAAAATACGAACAAAAG
64 TAAAATTAGAAAATAGATAT-TTTTTTGAAAGTAATAAAA-TCGGGAAAAAAATACGAACAAAGG
** *
16627975 GCTAAAATAAGGATTTTTTACTAAATT
127 GCCGAAATAAGGGTTTTTT--TAAATT
** * * *
16628002 -TAAAAAAAACAGA-AATAATTAATACATTTTAAACATAATGTACTAAAATAATGTAAAA-AATA
1 ATTTAAAAAACACACAATAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
* *
16628064 AAA-TACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGGGAAAAAAATACGAGCAAAGG
66 AAATTA-GAAAAT-AGATATTTTT-TTGAAAGTAAT-AAAATCGGGAAAAAAATACGAACAAAGG
16628128 GCCGAAATAAGGGTTTTTTTAAACTT
127 GCCGAAATAAGGGTTTTTTTAAA-TT
* *
16628154 ATTTAAAAAAACACACTAA-ATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATA
1 ATTT-AAAAAACACAC-AATAATTA-ATAAATTTCAAACATAATGTACTAAAATAATGTAAAATA
**
16628218 ATAAAATTAGAAAATAGTATATTTTTTT-AAAGTAATAAAAT--TTAAAAAAATACGAACAAAGG
63 ATAAAATTAGAAAATAG-ATATTTTTTTGAAAGTAATAAAATCGGGAAAAAAATACGAACAAAGG
*
16628280 GCCGAAATAAGAGTTTTTTACTAAATT
127 GCCGAAATAAGGGTTTTTT--TAAATT
* * * * *
16628307 A---AAAAAATAGA-ATTAATTAATACA-TT--AACATAATGTACTAAAATAAAGTAAAATAATA
1 ATTTAAAAAACACACAATAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
* *
16628365 AAA-TACGAAAATAAGATATTTTTATTGAAAGTAATAAAATTCGGG-AAAAAATACGAGCAAAAG
66 AAATTA-GAAAAT-AGATATTTTT-TTGAAAGTAATAAAA-TCGGGAAAAAAATACGAACAAAGG
* *
16628428 GTCGAAATAAGAGTTTTTTTAAATTT
127 GCCGAAATAAGGGTTTTTTTAAA-TT
* * * *
16628454 AATTAAAAAACACACTAA-ATTTATTTAAATTTCAATCATAATGTACTAAAATAATGTAAAATAA
1 ATTTAAAAAACACAC-AATAATTA-ATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
* *
16628518 TAAAATTAGAAAATAG-TCTATTTTTTAAAAGTAATAAAAT
64 TAAAATTAGAAAATAGATAT-TTTTTTGAAAGTAATAAAAT
16628558 TTGGATACAA
Statistics
Matches: 727, Mismatches: 79, Indels: 111
0.79 0.09 0.12
Matches are distributed among these distances:
143 2 0.00
144 48 0.07
145 4 0.01
146 18 0.02
147 8 0.01
148 38 0.05
149 10 0.01
150 23 0.03
151 77 0.11
152 148 0.20
153 135 0.19
154 81 0.11
155 69 0.09
156 43 0.06
157 21 0.03
158 2 0.00
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.31
Consensus pattern (151 bp):
ATTTAAAAAACACACAATAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
AAATTAGAAAATAGATATTTTTTTGAAAGTAATAAAATCGGGAAAAAAATACGAACAAAGGGCCG
AAATAAGGGTTTTTTTAAATT
Found at i:16628119 original size:305 final size:304
Alignment explanation
Indices: 16627544--16628558 Score: 1536
Period size: 305 Copynumber: 3.3 Consensus size: 304
16627534 AAAATTGTAC
* * * *
16627544 ATTTAAAAAATACTCTAAA-TTA-ATAAATTTCAAACATAATGTGCTAAAATAATGTAAAATAAT
1 ATTTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
* *
16627607 AAAATTAGAAAATA-TGATATTTTTT-AAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATG
66 AAAATTAGAAAATAGT-ATATTTTTTAAAAGTAATAAAATTCGG-G-AAAAAATACGAACAAAAG
* * * * *
16627670 GCCGAAGTAAGGGTTTTTTAAC-AATTTTTTTAAAAAAAGAAATAATTAATACATTTCAAACATA
128 GCCGAAATAAGGATTTTTT-ACTAA--ATTTAAAAAAAAGAAATAATTAATACATTTTAAACATA
* *
16627734 ATGTACTAAAATAATTTAAAAAATAAAATATGAAAATAATATATTTTTATTGAAAGTAATAAAAA
190 ATGTACTAAAATAATGTAAAAAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAA
* *
16627799 TCGAGAAAAAAATACGAGTAAAGGGTCGAAATAAGGGTTTTTTTAAA-TT
255 TCGGGAAAAAAATACGAGCAAAGGGTCGAAATAAGGGTTTTTTTAAACTT
16627848 ATTTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
1 ATTTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
*
16627913 AAAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAAAATACGAACAAAAGGCT
66 AAAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAAAATACGAACAAAAGGCC
*
16627978 AAAATAAGGATTTTTTACTAAATTTAAAAAAAACAGAAATAATTAATACATTTTAAACATAATGT
131 GAAATAAGGATTTTTTACTAAATTT-AAAAAAA-AGAAATAATTAATACATTTTAAACATAATGT
16628043 ACTAAAATAATGTAAAAAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGG
194 ACTAAAATAATGTAAAAAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGG
*
16628108 GAAAAAAATACGAGCAAAGGGCCGAAATAAGGGTTTTTTTAAACTT
259 GAAAAAAATACGAGCAAAGGGTCGAAATAAGGGTTTTTTTAAACTT
16628154 ATTTAAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
1 ATTT-AAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
* ** *
16628219 TAAAATTAGAAAATAGTATATTTTTTTAAAGTAATAAAATT--TAAAAAAATACGAACAAAGGGC
65 TAAAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAAAATACGAACAAAAGGC
*
16628282 CGAAATAA-GAGTTTTTTACTAAA-TTAAAAAAATAGAATTAATTAATACA--TT-AACATAATG
130 CGAAATAAGGA-TTTTTTACTAAATTTAAAAAAA-AGAAATAATTAATACATTTTAAACATAATG
* * *
16628342 TACTAAAATAAAGTAAAATAATAAAATACGAAAATAAGATATTTTTATTGAAAGTAATAAAATTC
193 TACTAAAATAATGTAAAA-AATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATC
* * *
16628407 GGG-AAAAAATACGAGCAAAAGGTCGAAATAAGAGTTTTTTTAAATTT
257 GGGAAAAAAATACGAGCAAAGGGTCGAAATAAGGGTTTTTTTAAACTT
* *
16628454 AATTAAAAAACACACTAAATTTATTTAAATTTCAATCATAATGTACTAAAATAATGTAAAATAAT
1 ATTTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
*
16628519 AAAATTAGAAAATAGTCTATTTTTTAAAAGTAATAAAATT
66 AAAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATT
16628559 TGGATACAAT
Statistics
Matches: 663, Mismatches: 37, Indels: 27
0.91 0.05 0.04
Matches are distributed among these distances:
299 98 0.15
300 69 0.10
301 49 0.07
303 25 0.04
304 29 0.04
305 207 0.31
306 69 0.10
307 117 0.18
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.31
Consensus pattern (304 bp):
ATTTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
AAAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAAAATACGAACAAAAGGCC
GAAATAAGGATTTTTTACTAAATTTAAAAAAAAGAAATAATTAATACATTTTAAACATAATGTAC
TAAAATAATGTAAAAAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGGGA
AAAAAATACGAGCAAAGGGTCGAAATAAGGGTTTTTTTAAACTT
Found at i:16628693 original size:83 final size:78
Alignment explanation
Indices: 16628555--16628788 Score: 341
Period size: 83 Copynumber: 3.0 Consensus size: 78
16628545 AAAGTAATAA
*
16628555 AATTTGGATACAA-TT-TAAGCATAAGCATAAGCTGAATAATTTTAATTATTTCAAATGAATTAT
1 AATTTGGATACAATTTATAAGCATAAGCATAAGCTGAATAATTTTAATTATTCCAAATGAATTAT
16628618 ATTTTTTATAACTT
66 A-TTTTTATAACTT
*
16628632 AATTTGGATACAATTTAAGCATAAGCATAATCATAAGCTGAATAATTTTAATTATTCCAAATGAA
1 AATTTGGATACAATTT----ATAAGCATAAGCATAAGCTGAATAATTTTAATTATTCCAAATGAA
* *
16628697 TTATACTTTTACAACTT
62 TTATATTTTTATAACTT
*
16628714 AATTTGGATATAATTTA-AA-CATAAGCATAAGCTGAATAATTTTAATTATTCCAAATGAATTAT
1 AATTTGGATACAATTTATAAGCATAAGCATAAGCTGAATAATTTTAATTATTCCAAATGAATTAT
16628777 ACTTTTTATAAC
66 A-TTTTTATAAC
16628789 ATTACACATA
Statistics
Matches: 142, Mismatches: 8, Indels: 14
0.87 0.05 0.09
Matches are distributed among these distances:
76 44 0.31
77 23 0.16
78 3 0.02
82 25 0.18
83 47 0.33
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (78 bp):
AATTTGGATACAATTTATAAGCATAAGCATAAGCTGAATAATTTTAATTATTCCAAATGAATTAT
ATTTTTATAACTT
Found at i:16628776 original size:76 final size:76
Alignment explanation
Indices: 16628555--16628782 Score: 339
Period size: 76 Copynumber: 2.9 Consensus size: 76
16628545 AAAGTAATAA
* *
16628555 AATTTGGATACAATTTAAGCATAAGCATAAGCTGAATAATTTTAATTATTTCAAATGAATTATAT
1 AATTTGGATACAATTTAAACATAAGCATAAGCTGAATAATTTTAATTATTCCAAATGAATTATA-
* *
16628620 TTTTTATAACTT
65 CTTTTACAACTT
*
16628632 AATTTGGATACAATTTAAGCATAAGCATAATCATAAGCTGAATAATTTTAATTATTCCAAATGAA
1 AATTTGGATACAATTT----A-AA-CATAAGCATAAGCTGAATAATTTTAATTATTCCAAATGAA
16628697 TTATACTTTTACAACTT
60 TTATACTTTTACAACTT
*
16628714 AATTTGGATATAATTTAAACATAAGCATAAGCTGAATAATTTTAATTATTCCAAATGAATTATAC
1 AATTTGGATACAATTTAAACATAAGCATAAGCTGAATAATTTTAATTATTCCAAATGAATTATAC
16628779 TTTT
66 TTTT
16628783 TATAACATTA
Statistics
Matches: 138, Mismatches: 7, Indels: 13
0.87 0.04 0.08
Matches are distributed among these distances:
76 49 0.36
77 18 0.13
78 1 0.01
81 1 0.01
82 26 0.19
83 43 0.31
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (76 bp):
AATTTGGATACAATTTAAACATAAGCATAAGCTGAATAATTTTAATTATTCCAAATGAATTATAC
TTTTACAACTT
Found at i:16631164 original size:272 final size:271
Alignment explanation
Indices: 16630667--16631212 Score: 993
Period size: 272 Copynumber: 2.0 Consensus size: 271
16630657 CATGCTATAC
* *
16630667 CGTTTTATAGCTAGTACGCACTCATCTTTACTTTCGAATCTTTAGCCTATGAATAACTCCTCATG
1 CGTTTTATAGCTAGTACGCACTCATCTTTACTTTCGAATCTCTAGCCTATGAATAAATCCTCATG
16630732 ATTAGAATTTACGAACAGCCGATGAGGATGTACTATTTCAGGGTACTCCGGGAACTCAGCTACAT
66 ATTAGAATTTACGAACAGCCGATGAGGATGTACTATTTCAGGGTACTCCGGGAACTCAGCTACAT
* *
16630797 ACACTGCATCCGGGTCTATGAGCGACATGTGTGGCCCAGGATTATTGTATAACAAAATACGTTGC
131 ACACTGCATCCGGGTCTATGAGCGACATGTGTGGCCCAAGATTATTGTATAACAAAATACGTCGC
*
16630862 ATCTAATTCCCGATCGAAGAAGCATTAATGTTTCCATCGTTATTCACATCTTCATCGTCAATATC
196 ATCTAATTCCCGATCGAAGAAGCATTAATGTTTCCATCATTATTCACATCTTCATCGTCAATATC
16630927 ATCAGGTACAT
261 ATCAGGTACAT
16630938 CGTTTTATAGCCTAGTACGCACTCATCTTTACTTTCGAATCTCTAGCCTATGAATAAATCCTCAT
1 CGTTTTATAG-CTAGTACGCACTCATCTTTACTTTCGAATCTCTAGCCTATGAATAAATCCTCAT
*
16631003 GATTAGAATTTACGGACAGCCGATGAGGATGTACTATTTCAGGGTACTCCGGGAACTCAGCTACA
65 GATTAGAATTTACGAACAGCCGATGAGGATGTACTATTTCAGGGTACTCCGGGAACTCAGCTACA
* *
16631068 TACGCTGCATCTGGGTCTATGAGCGACATGTGTGGCCCAAGATTATTGTATAACAAAATACGTCG
130 TACACTGCATCCGGGTCTATGAGCGACATGTGTGGCCCAAGATTATTGTATAACAAAATACGTCG
* *
16631133 CATCTGATTCCCGATCGAAGAAGCGTTAATGTTTCCATCATTATTCACATCTTCATCGTCAATAT
195 CATCTAATTCCCGATCGAAGAAGCATTAATGTTTCCATCATTATTCACATCTTCATCGTCAATAT
16631198 CATCAGGTACAT
260 CATCAGGTACAT
16631210 CGT
1 CGT
16631213 CCACATCGAG
Statistics
Matches: 264, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
271 10 0.04
272 254 0.96
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (271 bp):
CGTTTTATAGCTAGTACGCACTCATCTTTACTTTCGAATCTCTAGCCTATGAATAAATCCTCATG
ATTAGAATTTACGAACAGCCGATGAGGATGTACTATTTCAGGGTACTCCGGGAACTCAGCTACAT
ACACTGCATCCGGGTCTATGAGCGACATGTGTGGCCCAAGATTATTGTATAACAAAATACGTCGC
ATCTAATTCCCGATCGAAGAAGCATTAATGTTTCCATCATTATTCACATCTTCATCGTCAATATC
ATCAGGTACAT
Found at i:16631992 original size:37 final size:38
Alignment explanation
Indices: 16631943--16632035 Score: 104
Period size: 37 Copynumber: 2.5 Consensus size: 38
16631933 TCCTAATAAC
* *
16631943 TAACACAA-TAACAATAATAA-TA-GTTTTATACTCAAAA
1 TAACA-AACTAACAATAATAATTAGGGTTT-TACTAAAAA
16631980 TAACAAACTAACAATAATAATTAGGGTTTTACTAAAAA
1 TAACAAACTAACAATAATAATTAGGGTTTTACTAAAAA
* *
16632018 TAA-TAGCTAACAATAATA
1 TAACAAACTAACAATAATA
16632036 TAATGTAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
36 2 0.04
37 30 0.61
38 13 0.27
39 4 0.08
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (38 bp):
TAACAAACTAACAATAATAATTAGGGTTTTACTAAAAA
Found at i:16632067 original size:23 final size:23
Alignment explanation
Indices: 16632024--16632068 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
16632014 AAAATAATAG
*
16632024 CTAACAATAATATAATGTAAAAA
1 CTAACAATAATATAATCTAAAAA
*
16632047 CTAACAATCATACTAA-CTAAAA
1 CTAACAATAATA-TAATCTAAAA
16632069 TAATAATTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.58, C:0.16, G:0.02, T:0.24
Consensus pattern (23 bp):
CTAACAATAATATAATCTAAAAA
Found at i:16632141 original size:38 final size:40
Alignment explanation
Indices: 16632046--16632141 Score: 108
Period size: 39 Copynumber: 2.4 Consensus size: 40
16632036 TAATGTAAAA
* *
16632046 ACTAACAATCATACTAACTAAAATAATAATTAGGGTTTTT
1 ACTAACAATAATACTAACCAAAATAATAATTAGGGTTTTT
* * *
16632086 ACTAATC-CTAATAACTAACCATAATAAT-ATTA-GTTTTTT
1 ACTAA-CAATAAT-ACTAACCAAAATAATAATTAGGGTTTTT
16632125 ACTAACAATAATACTAA
1 ACTAACAATAATACTAA
16632142 GTAATAATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
38 6 0.13
39 15 0.32
40 12 0.26
41 14 0.30
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (40 bp):
ACTAACAATAATACTAACCAAAATAATAATTAGGGTTTTT
Found at i:16632149 original size:39 final size:39
Alignment explanation
Indices: 16632046--16632157 Score: 104
Period size: 39 Copynumber: 2.8 Consensus size: 39
16632036 TAATGTAAAA
*
16632046 ACTAACAATCATACTAACTAA-AATAATAATTAGGGTTTTT
1 ACTAACAATAATACTAA-TAATAATAAT-ATTAGGGTTTTT
* ** *
16632086 ACTAATC-CTAATAACTAACCATAATAATATTA-GTTTTTT
1 ACTAA-CAATAAT-ACTAATAATAATAATATTAGGGTTTTT
16632125 ACTAACAATAATACTAAGTAATAATAATTATTA
1 ACTAACAATAATACTAA-TAATAATAA-TATTA
16632158 ATAACTAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
38 6 0.10
39 22 0.38
40 18 0.31
41 12 0.21
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.37
Consensus pattern (39 bp):
ACTAACAATAATACTAATAATAATAATATTAGGGTTTTT
Found at i:16632386 original size:3 final size:3
Alignment explanation
Indices: 16632380--16632429 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
16632370 CTTCCTCCTC
* * * *
16632380 CTT CTT CTT CTT CTT TTT TTT CTT TTT CTT -TT -TT CTT CTT CTT CTC
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
16632426 CTT C
1 CTT C
16632430 AGCTGGACGG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
CTT
Found at i:16632413 original size:13 final size:13
Alignment explanation
Indices: 16632387--16632422 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
16632377 CTCCTTCTTC
16632387 TTCTTCTT-TTTT
1 TTCTTCTTCTTTT
*
16632399 TTCTTTTTCTTTT
1 TTCTTCTTCTTTT
16632412 TTCTTCTTCTT
1 TTCTTCTTCTT
16632423 CTCCTTCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 7 0.33
13 14 0.67
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTCTTCTTCTTTT
Found at i:16633038 original size:30 final size:30
Alignment explanation
Indices: 16633002--16633069 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
16632992 TAGTTAGGAA
*
16633002 TTAGTTACTTAC-GTATAATTAGCAGTAGGG
1 TTAGTTAC-TACTGTATAATTAGCAATAGGG
*
16633032 TTAGTTA-TACTTGTATAATTGGCAATAGGG
1 TTAGTTACTAC-TGTATAATTAGCAATAGGG
16633062 TTAGTTAC
1 TTAGTTAC
16633070 ACTCTTGTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 3 0.09
30 30 0.91
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (30 bp):
TTAGTTACTACTGTATAATTAGCAATAGGG
Found at i:16639453 original size:17 final size:17
Alignment explanation
Indices: 16639407--16639453 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
16639397 TATTTTTATT
16639407 TTTATAAATATTATGTTA
1 TTTATAAA-ATTATGTTA
**
16639425 TTTATATTATTATTGTTA
1 TTTATAAAATTA-TGTTA
16639443 -TTATAAAATTA
1 TTTATAAAATTA
16639454 AAAATATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (17 bp):
TTTATAAAATTATGTTA
Found at i:16639476 original size:17 final size:16
Alignment explanation
Indices: 16639444--16639506 Score: 63
Period size: 17 Copynumber: 3.7 Consensus size: 16
16639434 TTATTGTTAT
* *
16639444 TATAAAATTAAAAATA
1 TATAAATTTTAAAATA
16639460 TATACAATTTTAAAATA
1 TATA-AATTTTAAAATA
*
16639477 TATAAATTAATAAAATAA
1 TATAAATT-TTAAAAT-A
16639495 TAATAAATTTTA
1 T-ATAAATTTTA
16639507 CATCAAGAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
16 8 0.21
17 20 0.51
18 4 0.10
19 7 0.18
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
TATAAATTTTAAAATA
Found at i:16639634 original size:22 final size:22
Alignment explanation
Indices: 16639607--16639653 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
16639597 TTTATATAAG
16639607 ATTATAAGTTTTT-TAAATATAT
1 ATTATAA-TTTTTATAAATATAT
*
16639629 ATTATAATTTTTATAAATTTAT
1 ATTATAATTTTTATAAATATAT
16639651 ATT
1 ATT
16639654 TTATTTATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTATAATTTTTATAAATATAT
Found at i:16642287 original size:19 final size:18
Alignment explanation
Indices: 16642263--16642302 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
16642253 ATAAAATCAA
*
16642263 ATAATAAATATGTAATTAT
1 ATAATAAATATAT-ATTAT
16642282 ATAATAAATATATATTAT
1 ATAATAAATATATATTAT
16642300 ATA
1 ATA
16642303 TATCATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
ATAATAAATATATATTAT
Found at i:16646913 original size:32 final size:31
Alignment explanation
Indices: 16646851--16646913 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
16646841 AAATGTTACG
* * *
16646851 TTTTGGTCACTTATGTTATTGTCTTGTAACA
1 TTTTAGTCACTGATGTTATTGTCATGTAACA
16646882 TTTTAGTCACTGAGTGTTAATTGTCAT-TAACA
1 TTTTAGTCACTGA-TGTT-ATTGTCATGTAACA
16646914 GTGTAACAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 11 0.41
32 9 0.33
33 7 0.26
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.48
Consensus pattern (31 bp):
TTTTAGTCACTGATGTTATTGTCATGTAACA
Done.