Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 254 of 320
Found at i:82753780 original size:55 final size:55
Alignment explanation
Indices: 82753647--82753781 Score: 148
Period size: 55 Copynumber: 2.5 Consensus size: 55
82753637 GCCGTAGGCG
* * * **
82753647 AACCTGCCAAAACAACACGGGTGTGCGACACGCCCGTGCCTTGAACCTGTGGCTA
1 AACCTGTCAAAACAACACGGGCGTGCGACACACCCGTGCCAAGAACCTGTGGCTA
** **
82753702 AACCTGTCAAATTAACAAAGGCGTGCGACACACCCGTGCCAAGCAACC-GTGGGC-A
1 AACCTGTCAAAACAACACGGGCGTGCGACACACCCGTGCCAAG-AACCTGT-GGCTA
*
82753757 AACTTGTCAAAACAACACGGGCGTG
1 AACCTGTCAAAACAACACGGGCGTG
82753782 GACTTTCACA
Statistics
Matches: 64, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
55 57 0.89
56 7 0.11
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.15
Consensus pattern (55 bp):
AACCTGTCAAAACAACACGGGCGTGCGACACACCCGTGCCAAGAACCTGTGGCTA
Found at i:82760091 original size:18 final size:18
Alignment explanation
Indices: 82760068--82760103 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
82760058 ACATAAATAA
82760068 GAAGAACATACGATTTAT
1 GAAGAACATACGATTTAT
82760086 GAAGAACATACGATTTAT
1 GAAGAACATACGATTTAT
82760104 CAAAAACCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (18 bp):
GAAGAACATACGATTTAT
Found at i:82768221 original size:4 final size:4
Alignment explanation
Indices: 82768212--82768243 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
82768202 TTCAACTTGG
82768212 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
82768244 ATGTCAACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:82770004 original size:22 final size:22
Alignment explanation
Indices: 82769964--82770005 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
82769954 TTACATTATA
*
82769964 AAAAAAATTAAACACTATAAGT
1 AAAAAAATTAAACAATATAAGT
82769986 AAAAAAATTATAA-AATATAA
1 AAAAAAATTA-AACAATATAA
82770006 AATGAGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (22 bp):
AAAAAAATTAAACAATATAAGT
Found at i:82770345 original size:16 final size:16
Alignment explanation
Indices: 82770324--82770354 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
82770314 GAGTATAGTA
82770324 AAATATTTAAAAAAAT
1 AAATATTTAAAAAAAT
82770340 AAATATTTAAAAAAA
1 AAATATTTAAAAAAA
82770355 GAGATATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATATTTAAAAAAAT
Found at i:82770361 original size:16 final size:16
Alignment explanation
Indices: 82770324--82770362 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
82770314 GAGTATAGTA
*
82770324 AAATATTTAAAAAAAT
1 AAATATTTAAAAAAAG
82770340 AAATATTTAAAAAAAG
1 AAATATTTAAAAAAAG
*
82770356 AGATATT
1 AAATATT
82770363 ATTTTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (16 bp):
AAATATTTAAAAAAAG
Found at i:82774803 original size:54 final size:53
Alignment explanation
Indices: 82774617--82774822 Score: 220
Period size: 53 Copynumber: 3.9 Consensus size: 53
82774607 ATATCATACT
* * * * *
82774617 GATGCCATATCCCAGATATGGTCTTACACGG-AAGCACTTATCACTTTTCTCC
1 GATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACTTATCACTTTTATCC
* *
82774669 GATGCCATAGCCCAGCTATGGTCTTATAC--AGATCACTTGTATCACTTTAATCC
1 GATGCCATAGCCCAGCTATGGTCTTATACGGAAATCAC-T-TATCACTTTTATCC
* * **
82774722 GAAGCCATAGCCCAGCTATGGTCTTATACGGAAATCACTTATCACTTGTTTTTA
1 GATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACTTATCACTT-TTATCC
* * * * *
82774776 GATGTCATAGCCCAGCTATAGTCTTATAAGGATATCGCTTATCACTT
1 GATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACTTATCACTT
82774823 GTTGCCATGG
Statistics
Matches: 129, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
51 4 0.03
52 27 0.21
53 48 0.37
54 44 0.34
55 6 0.05
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.33
Consensus pattern (53 bp):
GATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACTTATCACTTTTATCC
Found at i:82780028 original size:6 final size:6
Alignment explanation
Indices: 82780017--82780052 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
82780007 GATGATTTGA
82780017 GCCCTT GCCCTT GCCCTT GCCCTT GCCCTT GCCCTT
1 GCCCTT GCCCTT GCCCTT GCCCTT GCCCTT GCCCTT
82780053 AGGCTCCATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.17, T:0.33
Consensus pattern (6 bp):
GCCCTT
Found at i:82780635 original size:19 final size:18
Alignment explanation
Indices: 82780594--82780638 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
82780584 CGGGGTCTAT
82780594 TATTTTTACAAAATAATA
1 TATTTTTACAAAATAATA
* * *
82780612 TATTTTTTCAAATTATTA
1 TATTTTTACAAAATAATA
82780630 TAATTTTTA
1 T-ATTTTTA
82780639 TTATCTCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTTTACAAAATAATA
Found at i:82788269 original size:84 final size:87
Alignment explanation
Indices: 82788073--82788291 Score: 283
Period size: 88 Copynumber: 2.6 Consensus size: 87
82788063 CTCTCCTTTT
** *
82788073 TTTTTTTGCACTCAATTGGGTGTTTTAACTTTCAAAATGCATTAAAAAGGCCCTCAAACCATTTT
1 TTTTTTTGCACTCAATTGGGTACTTAAACTTTCAAAATGCATTAAAAAGGCCCTCAAACCA-TTT
82788138 TTAAAAAAGTAATTAAGCCCCTAC
65 TTAAAAAAG-AATTAAGCCCCTAC
82788162 TTTTTTT-CACTCAATTGGGTACTTAAACTTTCAAAATGCATTAAAAA-G-CCTACAAA-C-TTT
1 TTTTTTTGCACTCAATTGGGTACTTAAACTTTCAAAATGCATTAAAAAGGCCCT-CAAACCATTT
82788222 TTAAAAAA-AATTAAGCCCCTGA-
65 TTAAAAAAGAATTAAGCCCCT-AC
** *
82788244 TTTTTTTGGCACTCAATTAAGTACTTAAACTTT-AAAATGCATCAAAAA
1 TTTTTTT-GCACTCAATTGGGTACTTAAACTTTCAAAATGCATTAAAAA
82788292 TACTTTTTGA
Statistics
Matches: 120, Mismatches: 6, Indels: 14
0.86 0.04 0.10
Matches are distributed among these distances:
82 19 0.16
83 15 0.12
84 33 0.28
86 4 0.03
87 5 0.04
88 37 0.31
89 7 0.06
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.36
Consensus pattern (87 bp):
TTTTTTTGCACTCAATTGGGTACTTAAACTTTCAAAATGCATTAAAAAGGCCCTCAAACCATTTT
TAAAAAAGAATTAAGCCCCTAC
Found at i:82788334 original size:20 final size:20
Alignment explanation
Indices: 82788298--82788335 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
82788288 AAAATACTTT
**
82788298 TTGACCATTAACTTTAACAG
1 TTGACCATTAAAGTTAACAG
82788318 TTGACCATTAAAGTTAAC
1 TTGACCATTAAAGTTAAC
82788336 TGCTCCTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (20 bp):
TTGACCATTAAAGTTAACAG
Found at i:82788434 original size:9 final size:9
Alignment explanation
Indices: 82788398--82788535 Score: 66
Period size: 10 Copynumber: 14.4 Consensus size: 9
82788388 CATGTGGCAA
82788398 AAAAATTAT
1 AAAAATTAT
82788407 AAAAA--AT
1 AAAAATTAT
*
82788414 AAAAATAAAT
1 AAAAAT-TAT
*
82788424 AAAAGTTAT
1 AAAAATTAT
82788433 AAAAATTATT
1 AAAAATTA-T
**
82788443 AAATTTTAAT
1 AAAAATT-AT
82788453 AAAAA-TAT
1 AAAAATTAT
82788461 AAAAATATTAT
1 -AAAA-ATTAT
* *
82788472 TAAAATTAGGAA
1 AAAAATT---AT
82788484 AAAAATTAT
1 AAAAATTAT
*
82788493 AAAATATTGT
1 AAAA-ATTAT
*
82788503 AAAATTTTAT
1 AAAA-ATTAT
* *
82788513 AAAAGTCAT
1 AAAAATTAT
82788522 AAAAAATTAT
1 -AAAAATTAT
82788532 AAAA
1 AAAA
82788536 TGCATCAAAA
Statistics
Matches: 98, Mismatches: 18, Indels: 26
0.69 0.13 0.18
Matches are distributed among these distances:
7 7 0.07
8 2 0.02
9 34 0.35
10 44 0.45
11 4 0.04
12 7 0.07
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:82788506 original size:21 final size:21
Alignment explanation
Indices: 82788452--82788506 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
82788442 TAAATTTTAA
* *
82788452 TAAAAATA-TAAAAATATTAT
1 TAAAATTAGTAAAAAAATTAT
*
82788472 TAAAATTAGGAAAAAAATTA-
1 TAAAATTAGTAAAAAAATTAT
*
82788492 TAAAATATTGTAAAA
1 TAAAAT-TAGTAAAA
82788507 TTTTATAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (21 bp):
TAAAATTAGTAAAAAAATTAT
Found at i:82788672 original size:9 final size:9
Alignment explanation
Indices: 82788658--82788920 Score: 70
Period size: 9 Copynumber: 27.0 Consensus size: 9
82788648 TTTTAGTACG
82788658 ATAATTTTT
1 ATAATTTTT
82788667 ATAATTTTTTTT
1 ATAA---TTTTT
82788679 ATGAA-TTTT
1 AT-AATTTTT
82788688 ATAATTTTT
1 ATAATTTTT
82788697 -TACATTTTTT
1 ATA-A-TTTTT
82788707 ATAATTTTCTT
1 ATAA-TTT-TT
* *
82788718 ATGA-CTTT
1 ATAATTTTT
*
82788726 ATAAAATTTT
1 AT-AATTTTT
82788736 ATAATTGTTT
1 ATAATT-TTT
* * *
82788746 TTGTATTTCT
1 AT-AATTTTT
82788756 ATATATTTTCT
1 ATA-ATTTT-T
*
82788767 A-ATTTTTT
1 ATAATTTTT
*
82788775 ATGATTTTT
1 ATAATTTTT
*
82788784 ATAAAATTTT
1 AT-AATTTTT
* *
82788794 ACAAATTTT
1 ATAATTTTT
82788803 ATATATTTTT
1 ATA-ATTTTT
*
82788813 -TAAGATTTTC
1 AT-A-ATTTTT
82788823 ATAAATTTTTTT
1 AT-AA--TTTTT
*
82788835 GTAATTTTT
1 ATAATTTTT
82788844 AATAATTTTT
1 -ATAATTTTT
82788854 ATATATTTTTT
1 ATA-A-TTTTT
* *
82788865 ATTAAAATTTA
1 A-T-AATTTTT
*
82788876 ATTATTTTT
1 ATAATTTTT
*
82788885 ATAACTTTT
1 ATAATTTTT
*
82788894 ATTGATTTTT
1 A-TAATTTTT
*
82788904 AT-TTTTTT
1 ATAATTTTT
*
82788912 ATCATTTTT
1 ATAATTTTT
82788921 TGCCACATGT
Statistics
Matches: 190, Mismatches: 35, Indels: 58
0.67 0.12 0.20
Matches are distributed among these distances:
8 17 0.09
9 67 0.35
10 62 0.33
11 27 0.14
12 14 0.07
13 3 0.02
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (9 bp):
ATAATTTTT
Found at i:82788697 original size:19 final size:19
Alignment explanation
Indices: 82788663--82788853 Score: 79
Period size: 19 Copynumber: 9.7 Consensus size: 19
82788653 GTACGATAAT
82788663 TTTTATAATTTTTTTTATGAA
1 TTTTATAA--TTTTTTATGAA
* *
82788684 TTTTATAATTTTTTA-CATT
1 TTTTATAATTTTTTATGA-A
82788703 TTTTATAATTTTCTTATG-A
1 TTTTATAATTTT-TTATGAA
* **
82788722 CTTTATAAAATTTTAT-AA
1 TTTTATAATTTTTTATGAA
* ** *
82788740 TTGTTTTTGTATTTCTAT-ATA
1 TT-TTATAAT-TTTTTATGA-A
* *
82788761 TTTTCTAATTTTTTATGAT
1 TTTTATAATTTTTTATGAA
** **
82788780 TTTTATAAAATTTTACAAA
1 TTTTATAATTTTTTATGAA
*
82788799 TTTTATATATTTTTTAAG-A
1 TTTTATA-ATTTTTTATGAA
82788818 TTTTCATAAATTTTTT-TGTAA
1 TTTT-AT-AATTTTTTATG-AA
82788839 TTTTTAATAATTTTT
1 -TTTT-ATAATTTTT
82788854 ATATATTTTT
Statistics
Matches: 125, Mismatches: 31, Indels: 28
0.68 0.17 0.15
Matches are distributed among these distances:
18 7 0.06
19 63 0.50
20 29 0.23
21 20 0.16
22 6 0.05
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63
Consensus pattern (19 bp):
TTTTATAATTTTTTATGAA
Found at i:82788737 original size:29 final size:27
Alignment explanation
Indices: 82788703--82788866 Score: 91
Period size: 29 Copynumber: 5.6 Consensus size: 27
82788693 TTTTTACATT
82788703 TTTTATAATTTTCTTATGACTTTATAAAA
1 TTTTATAATTTT-TTATGA-TTTATAAAA
* *
82788732 TTTTATAATTGTTTT-TGTATTTCTATATA
1 TTTTATAATT-TTTTATG-ATTTATA-AAA
*
82788761 TTTTCTAATTTTTTATGATTTTTATAAAA
1 TTTTATAATTTTTTATGA--TTTATAAAA
* * * *
82788790 TTTTACAAATTTTATAT-ATTTTTTAAGA
1 TTTTA-TAATTTTTTATGA-TTTATAAAA
*
82788818 TTTTCATAAATTTTTT-TGTAATTTTTAATAA
1 TTTT-AT-AATTTTTTATG--ATTTATAA-AA
82788849 TTTTTATATATTTTTTAT
1 -TTTTATA-ATTTTTTAT
82788867 TAAAATTTAA
Statistics
Matches: 106, Mismatches: 13, Indels: 29
0.72 0.09 0.20
Matches are distributed among these distances:
28 25 0.24
29 41 0.39
30 24 0.23
31 11 0.10
32 5 0.05
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (27 bp):
TTTTATAATTTTTTATGATTTATAAAA
Found at i:82788792 original size:21 final size:21
Alignment explanation
Indices: 82788767--82788874 Score: 73
Period size: 21 Copynumber: 5.2 Consensus size: 21
82788757 TATATTTTCT
*
82788767 AATTTTTTATGATTTTTATAA
1 AATTTTTTATAATTTTTATAA
* *
82788788 AA--TTTTACAAATTTTAT-A
1 AATTTTTTATAATTTTTATAA
* *
82788806 TATTTTTTA-AGATTTTCATAA
1 AATTTTTTATA-ATTTTTATAA
* * *
82788827 ATTTTTTTGTAATTTTTA-AT
1 AATTTTTTATAATTTTTATAA
*
82788847 AATTTTTATATATTTTTTATTAA
1 AATTTTT-TATAATTTTTA-TAA
82788870 AATTT
1 AATTT
82788875 AATTATTTTT
Statistics
Matches: 64, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
18 2 0.03
19 13 0.20
20 18 0.28
21 24 0.38
22 1 0.02
23 6 0.09
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (21 bp):
AATTTTTTATAATTTTTATAA
Found at i:82788813 original size:20 final size:20
Alignment explanation
Indices: 82788767--82788833 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
82788757 TATATTTTCT
** *
82788767 AATTTTTTATGATTTTTATA
1 AATTTTTTAAAATTTTCATA
*
82788787 AA-ATTTTACAAATTTT-ATA
1 AATTTTTTA-AAATTTTCATA
* *
82788806 TATTTTTTAAGATTTTCATA
1 AATTTTTTAAAATTTTCATA
82788826 AATTTTTT
1 AATTTTTT
82788834 TGTAATTTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
19 15 0.41
20 22 0.59
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (20 bp):
AATTTTTTAAAATTTTCATA
Found at i:82788862 original size:19 final size:19
Alignment explanation
Indices: 82788750--82788862 Score: 52
Period size: 20 Copynumber: 5.8 Consensus size: 19
82788740 TTGTTTTTGT
* *
82788750 ATTTCTATATATTTT-CTA
1 ATTTTTATATATTTTAATA
*
82788768 ATTTTT-TATGATTTTTATAA
1 ATTTTTATAT-ATTTTAAT-A
* * *
82788788 AATTTTACAAATTTTATATA
1 ATTTTTATATATTTTA-ATA
* * *
82788808 TTTTTTA-AGATTTTCATAA
1 ATTTTTATATATTTTAAT-A
* *
82788827 ATTTTTTTGTAATTTTTAATA
1 ATTTTTATAT-A-TTTTAATA
82788848 ATTTTTATATATTTT
1 ATTTTTATATATTTT
82788863 TTATTAAAAT
Statistics
Matches: 69, Mismatches: 17, Indels: 17
0.67 0.17 0.17
Matches are distributed among these distances:
17 3 0.04
18 12 0.17
19 17 0.25
20 18 0.26
21 13 0.19
22 6 0.09
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.62
Consensus pattern (19 bp):
ATTTTTATATATTTTAATA
Found at i:82794217 original size:127 final size:128
Alignment explanation
Indices: 82794038--82794355 Score: 392
Period size: 127 Copynumber: 2.5 Consensus size: 128
82794028 CAAAAAACCG
* * ** *
82794038 AAACCCAGCATGGTAGGGCACGATTC-CTCGAACTTCCAAACATTGAACATTGCCTTGTTTTAGA
1 AAACCCAGCACGGTAGGGCACGATTCTC-CGAATTTCCAAACATCAAACATTGCCTTGTTTTAAA
* * * ** *
82794102 ATTTA-AAGAATACGAATGAAATTCTAAAGGAATATTTGATTATTTTGAACGAACAAGAAATCA
65 ATTTAGAAAAACACGAATGAAATTCTAAAGGAAGATTCAATTATTTTGAACAAACAAGAAATCA
* * * *
82794165 AAACCCAGCACGATAGGGCACGGTTCTCCGAATTTCCAAGCATCAAACATTGCGTTGTTTTAAAA
1 AAACCCAGCACGGTAGGGCACGATTCTCCGAATTTCCAAACATCAAACATTGCCTTGTTTTAAAA
* ** *
82794230 TTTAGAAAAACACGAATGAAATTCTAAAGGAAGGTTCAATTATTTTGAACAAACGGGAAATCG
66 TTTAGAAAAACACGAATGAAATTCTAAAGGAAGATTCAATTATTTTGAACAAACAAGAAATCA
* *
82794293 AAACCTAG-ACGGTAGGGCACGATT-TACTGAATTTCCAAACATCAAACATTGCCTTCGTTTTAA
1 AAACCCAGCACGGTAGGGCACGATTCT-CCGAATTTCCAAACATCAAACATTGCCTT-GTTTTAA
82794356 GGAATTTTTA
Statistics
Matches: 162, Mismatches: 25, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
126 1 0.01
127 98 0.60
128 63 0.39
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.27
Consensus pattern (128 bp):
AAACCCAGCACGGTAGGGCACGATTCTCCGAATTTCCAAACATCAAACATTGCCTTGTTTTAAAA
TTTAGAAAAACACGAATGAAATTCTAAAGGAAGATTCAATTATTTTGAACAAACAAGAAATCA
Found at i:82795325 original size:19 final size:17
Alignment explanation
Indices: 82795299--82795334 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
82795289 ATAATATGAT
82795299 ATATAAAAAACTTCAAA
1 ATATAAAAAACTTCAAA
82795316 ATATAAAAAACTTCAAA
1 ATATAAAAAACTTCAAA
82795333 AT
1 AT
82795335 GGTAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.25
Consensus pattern (17 bp):
ATATAAAAAACTTCAAA
Found at i:82797301 original size:44 final size:43
Alignment explanation
Indices: 82797233--82797660 Score: 321
Period size: 44 Copynumber: 9.7 Consensus size: 43
82797223 TCTACTGTAA
* *
82797233 CTGCTCGACTGCAACTTCAGGGAGATAAGGTTAATGGCTTCGAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTAAT-GCTTCAAT
* * * *
82797277 CTGCTCCACTGTAACTTCAAGGAGATAAAGTTCACCAT-CTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTT-A--ATGCTTCAAT
* *
82797322 CTGCCCCACTGCAACTTCAGGGAGATAAGACTTGTAA--CTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAG--GT-TAATGCTTCAAT
* * * *
82797366 CTACTTCACTGCATCTTCAGGGAGATAAGGTTAATGGCTTCGAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTAAT-GCTTCAAT
* * *
82797410 CTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAT-CTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTT---AATGCTTCAAT
* ** *
82797455 CTGCCCCACTGCAACTTCAGGGAGATAAAACTTGTAA--CTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGAT--AAGGT-TAATGCTTCAAT
** * * *
82797499 CTAATCCACTGCATCTTCAGAGAGATAGGGTTAATGTCTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTAATG-CTTCAAT
* * * * *
82797543 CTGCACCACTACAACTTCAGGGAGATAAGATTCGCCAT-CTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTT---AATGCTTCAAT
* * *
82797588 CTGCTCCACTGCAACTTCAAGGAGATAAGATTAATGGCTTTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTAAT-GCTTCAAT
* * *
82797632 CTGCTTCACTGCAACTTCAAGAAGATAAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAG
82797661 ATTTGTCATA
Statistics
Matches: 303, Mismatches: 58, Indels: 46
0.74 0.14 0.11
Matches are distributed among these distances:
41 6 0.02
42 5 0.02
44 181 0.60
45 98 0.32
47 11 0.04
48 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGGTTAATGCTTCAAT
Found at i:82797478 original size:133 final size:133
Alignment explanation
Indices: 82797240--82797617 Score: 596
Period size: 133 Copynumber: 2.8 Consensus size: 133
82797230 TAACTGCTCG
* * *
82797240 ACTGCAACTTCAGGGAGATAAGGTTAATGGCTTCGATCTGCTCCACTGTAACTTCAAGGAGATAA
1 ACTGCATCTTCAGGGAGATAAGGTTAATGGCTTCGATCTGCTCCACTGCAACTTCAGGGAGATAA
* *
82797305 -AGTTCACCATCTTCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTA
66 GA-TTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTA
* *
82797369 CTTC
130 ATCC
82797373 ACTGCATCTTCAGGGAGATAAGGTTAATGGCTTCGATCTGCTCCACTGCAACTTCAGGGAGATAA
1 ACTGCATCTTCAGGGAGATAAGGTTAATGGCTTCGATCTGCTCCACTGCAACTTCAGGGAGATAA
*
82797438 GATTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGAGATAAAACTTGTAACTTCAACCTAA
66 GATTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTAA
82797503 TCC
131 TCC
* * * * * *
82797506 ACTGCATCTTCAGAGAGATAGGGTTAATGTCTTCAATCTGCACCACTACAACTTCAGGGAGATAA
1 ACTGCATCTTCAGGGAGATAAGGTTAATGGCTTCGATCTGCTCCACTGCAACTTCAGGGAGATAA
* *
82797571 GATTCGCCATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGA
66 GATTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGA
82797618 TTAATGGCTT
Statistics
Matches: 227, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
133 226 1.00
134 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (133 bp):
ACTGCATCTTCAGGGAGATAAGGTTAATGGCTTCGATCTGCTCCACTGCAACTTCAGGGAGATAA
GATTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTAA
TCC
Found at i:82797642 original size:133 final size:133
Alignment explanation
Indices: 82797240--82797660 Score: 587
Period size: 133 Copynumber: 3.2 Consensus size: 133
82797230 TAACTGCTCG
* * *
82797240 ACTGCAACTTCAGGGAGATAAGGTTAATGGCTTCGATCTGCTCCACTGTAACTTCAAGGAGATAA
1 ACTGCAACTTCAGAGAGATAAGGTTAATGGCTTCGATCTGCTCCACTGCAACTTCAGGGAGATAA
*
82797305 -AGTTCACCATCTTCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTA
66 GA-TTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTA
82797369 CTTC
130 CTTC
* *
82797373 ACTGCATCTTCAGGGAGATAAGGTTAATGGCTTCGATCTGCTCCACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGAGAGATAAGGTTAATGGCTTCGATCTGCTCCACTGCAACTTCAGGGAGATAA
* * *
82797438 GATTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGAGATAAAACTTGTAACTTCAACCTAA
66 GATTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTAC
*
82797503 TCC
131 TTC
* * * * * *
82797506 ACTGCATCTTCAGAGAGATAGGGTTAATGTCTTCAATCTGCACCACTACAACTTCAGGGAGATAA
1 ACTGCAACTTCAGAGAGATAAGGTTAATGGCTTCGATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * ** * *
82797571 GATTCGCCATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGA-TTAATGGCTTTAATCTG
66 GATTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTCAATCTA
82797635 CTTC
130 CTTC
82797639 ACTGCAACTTCA-AGAAGATAAG
1 ACTGCAACTTCAGAG-AGATAAG
82797661 ATTTGTCATA
Statistics
Matches: 258, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
132 4 0.02
133 253 0.98
134 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (133 bp):
ACTGCAACTTCAGAGAGATAAGGTTAATGGCTTCGATCTGCTCCACTGCAACTTCAGGGAGATAA
GATTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTAC
TTC
Found at i:82797660 original size:89 final size:87
Alignment explanation
Indices: 82797233--82797663 Score: 370
Period size: 89 Copynumber: 4.9 Consensus size: 87
82797223 TCTACTGTAA
* * * * *
82797233 CTGCTCGACTGCAACTTCAGGGAGATAAGGTTAATGGCTTCGATCTGCTCCACTGTAACTTCAAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTAATGGCTTCAATCTGCTCCACTGCAACTTCAGG
*
82797298 GAGATAA-AGTTCACCATCTTCAGT
66 GAGATAAGA-TT--GCATCTTCAGT
* * ** * * *
82797322 CTGCCCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTCAATCTACTTCACTGCATCTTCAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAATGGCTTCAATCTGCTCCACTGCAACTTCAG
* *
82797386 GGAGATAAGGTT-AATGGCTTC-GAT
65 GGAGATAAGATTGCAT--CTTCAG-T
* * *
82797410 CTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAT--CTTCAGTCTGCCCCACTGCAACTTC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATT---AATGGCTTCAATCTGCTCCACTGCAACTTC
* * * **
82797473 AGGGAGATAAAACTTGTAACTTCAAC
63 AGGGAGATAAGA-TTGCATCTTCAGT
** * * * * * * *
82797499 CTAATCCACTGCATCTTCAGAGAGATAGGGTTAATGTCTTCAATCTGCACCACTACAACTTCAGG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTAATGGCTTCAATCTGCTCCACTGCAACTTCAGG
82797564 GAGATAAGATTCGCCATCTTCAGT
66 GAGATAAGATT-G-CATCTTCAGT
* * * *
82797588 CTGCTCCACTGCAACTTCAAGGAGATAAGATTAATGGCTTTAATCTGCTTCACTGCAACTTCAAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTAATGGCTTCAATCTGCTCCACTGCAACTTCAGG
*
82797653 AAGATAAGATT
66 GAGATAAGATT
82797664 TGTCATAATT
Statistics
Matches: 270, Mismatches: 56, Indels: 32
0.75 0.16 0.09
Matches are distributed among these distances:
86 4 0.01
87 5 0.02
88 68 0.25
89 187 0.69
90 4 0.01
91 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (87 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGATTAATGGCTTCAATCTGCTCCACTGCAACTTCAGG
GAGATAAGATTGCATCTTCAGT
Found at i:82809253 original size:127 final size:129
Alignment explanation
Indices: 82809062--82809376 Score: 409
Period size: 129 Copynumber: 2.5 Consensus size: 129
82809052 GTCCAACAAA
* * * * *
82809062 AAATCGAAACCCAGCACGGTAGGGTACGATTCCTCGAACTTCCAAACATTGAACATTGCCTTGTT
1 AAATCGAAACCCAGCACGGTAGGGCACGATTCCCCGAATTTCCAAACATTAAACATTGCATTGTT
* * * *
82809127 TTAGAATTTA-AAG-AATACGAACAAAATTCTAAAGGAATATTTGATTATTTTGAACAAAAGAG
66 TTAAAATTTAGAAGAAAAACGAACAAAATTCTAAAGGAAGATTCGATTATTTTGAACAAAAGAG
* * * * * *
82809189 AAATCGAAACCCAACACGATAGGGCACGGTTCCCCAAATTTCCAAGCATCAAACATTGCATTGTT
1 AAATCGAAACCCAGCACGGTAGGGCACGATTCCCCGAATTTCCAAACATTAAACATTGCATTGTT
** * * *
82809254 TTAAAATTTAGAAGAAAAACGAATGAAATTCTAAAGGAAGGTTCGATTATTTTGAACAAATGGG
66 TTAAAATTTAGAAGAAAAACGAACAAAATTCTAAAGGAAGATTCGATTATTTTGAACAAAAGAG
* * *
82809318 AAATCAAAACCCAGCACGGTAGGGCACGATTTCCCGAATTTCCAAACGTTAAACATTGC
1 AAATCGAAACCCAGCACGGTAGGGCACGATTCCCCGAATTTCCAAACATTAAACATTGC
82809377 CTTCATTTTA
Statistics
Matches: 157, Mismatches: 29, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
127 63 0.40
128 3 0.02
129 91 0.58
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (129 bp):
AAATCGAAACCCAGCACGGTAGGGCACGATTCCCCGAATTTCCAAACATTAAACATTGCATTGTT
TTAAAATTTAGAAGAAAAACGAACAAAATTCTAAAGGAAGATTCGATTATTTTGAACAAAAGAG
Found at i:82809550 original size:47 final size:47
Alignment explanation
Indices: 82809481--82809576 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
82809471 CGTTGGAAAG
82809481 TATAAAGTGATATTTGTAAACCAAAAAGGAAAAATAAAAACATGGGA
1 TATAAAGTGATATTTGTAAACCAAAAAGGAAAAATAAAAACATGGGA
*
82809528 TATAAAGTGATATTTGTAAACCAAAAAGGAAAAATAATAACATGGGA
1 TATAAAGTGATATTTGTAAACCAAAAAGGAAAAATAAAAACATGGGA
82809575 TA
1 TA
82809577 ACATGCATGT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (47 bp):
TATAAAGTGATATTTGTAAACCAAAAAGGAAAAATAAAAACATGGGA
Found at i:82826452 original size:43 final size:43
Alignment explanation
Indices: 82826404--82826488 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
82826394 AACATGTTAG
82826404 TCATTACTTCACATAAATTTCAAGAATCAAAGATGAACTCATA
1 TCATTACTTCACATAAATTTCAAGAATCAAAGATGAACTCATA
82826447 TCATTACTTCACATAAATTTCAAGAATCAAAGATGAACTCAT
1 TCATTACTTCACATAAATTTCAAGAATCAAAGATGAACTCAT
82826489 CATGTAGTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.31
Consensus pattern (43 bp):
TCATTACTTCACATAAATTTCAAGAATCAAAGATGAACTCATA
Found at i:82826596 original size:75 final size:75
Alignment explanation
Indices: 82826510--82826659 Score: 282
Period size: 75 Copynumber: 2.0 Consensus size: 75
82826500 TTTCATAAAC
* *
82826510 ATGTGCTTTTCATATTATATTTCCATATAACATGTGCATTTCATATAACAAATCATCTTAAGTTC
1 ATGTGATTTTCATATCATATTTCCATATAACATGTGCATTTCATATAACAAATCATCTTAAGTTC
82826575 ATTTTAACCA
66 ATTTTAACCA
82826585 ATGTGATTTTCATATCATATTTCCATATAACATGTGCATTTCATATAACAAATCATCTTAAGTTC
1 ATGTGATTTTCATATCATATTTCCATATAACATGTGCATTTCATATAACAAATCATCTTAAGTTC
82826650 ATTTTAACCA
66 ATTTTAACCA
82826660 TGTTAGAACT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.42
Consensus pattern (75 bp):
ATGTGATTTTCATATCATATTTCCATATAACATGTGCATTTCATATAACAAATCATCTTAAGTTC
ATTTTAACCA
Found at i:82826995 original size:25 final size:25
Alignment explanation
Indices: 82826967--82827016 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
82826957 TTCAAGTGAG
82826967 CTATATCAAGGA-GCTCACAAAGAGC
1 CTATATC-AGGACGCTCACAAAGAGC
*
82826992 CTATATCAGGACGCTCATAAAGAGC
1 CTATATCAGGACGCTCACAAAGAGC
82827017 TGCGTTTGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (25 bp):
CTATATCAGGACGCTCACAAAGAGC
Found at i:82830112 original size:29 final size:30
Alignment explanation
Indices: 82830056--82830118 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 30
82830046 TATTAAAATC
*
82830056 ATATATGAATTTTGATTTAATGTGTAATGTT
1 ATATATGAATTTTGATTT-ATGTATAATGTT
*
82830087 ATATATGAATTTTGATTT-TGTATAATTTT
1 ATATATGAATTTTGATTTATGTATAATGTT
82830116 ATA
1 ATA
82830119 CATAAAACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 12 0.40
31 18 0.60
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (30 bp):
ATATATGAATTTTGATTTATGTATAATGTT
Found at i:82837168 original size:21 final size:21
Alignment explanation
Indices: 82837129--82837168 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
82837119 AAATATGGAC
* **
82837129 AAATTGAGATTGTGTAAATTG
1 AAATTGAAATTGTAAAAATTG
82837150 AAATTGAAATTGTAAAAAT
1 AAATTGAAATTGTAAAAAT
82837169 AAACAGAGTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.35
Consensus pattern (21 bp):
AAATTGAAATTGTAAAAATTG
Found at i:82838536 original size:7 final size:7
Alignment explanation
Indices: 82838524--82838571 Score: 78
Period size: 7 Copynumber: 6.9 Consensus size: 7
82838514 TCCCTCTCTT
82838524 TTTTTTC
1 TTTTTTC
82838531 TTTTTTC
1 TTTTTTC
82838538 TTTTTTC
1 TTTTTTC
*
82838545 CTTTTTC
1 TTTTTTC
82838552 TTTTTTC
1 TTTTTTC
*
82838559 GTTTTTC
1 TTTTTTC
82838566 TTTTTT
1 TTTTTT
82838572 TAAGAATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:82839869 original size:6 final size:6
Alignment explanation
Indices: 82839858--82839904 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
82839848 AACATTCAAG
*
82839858 AAAATA AAAATA TATATATA AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA -A-AAATA AAAATA AAAATA AAAATA AAAATA AAA
82839905 TTGGGTTGCC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 31 0.84
7 2 0.05
8 4 0.11
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:82849308 original size:22 final size:21
Alignment explanation
Indices: 82849253--82849312 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
82849243 TTTTAAAATA
*
82849253 TTATTAATTATTAATTTTAATT
1 TTATTAA-TATAAATTTTAATT
82849275 TTATTAATATAATATTTTATATT
1 TTATTAATATAA-ATTTTA-ATT
82849298 ATT-TTAA-ATAAATTT
1 -TTATTAATATAAATTT
82849313 GGATGAAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
21 8 0.24
22 17 0.50
23 7 0.21
24 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATTAATATAAATTTTAATT
Found at i:82850385 original size:12 final size:13
Alignment explanation
Indices: 82850363--82850391 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
82850353 CAAAACAGAC
82850363 TTTTAGTGGCATT
1 TTTTAGTGGCATT
82850376 TTTTAG-GGCATT
1 TTTTAGTGGCATT
82850388 TTTT
1 TTTT
82850392 TAGGCCTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.14, C:0.07, G:0.21, T:0.59
Consensus pattern (13 bp):
TTTTAGTGGCATT
Found at i:82859381 original size:15 final size:15
Alignment explanation
Indices: 82859358--82859396 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
82859348 CTTGGCTTGC
*
82859358 ATTTTGAAATACAAA
1 ATTTAGAAATACAAA
82859373 ATTTAGAAATACAAA
1 ATTTAGAAATACAAA
82859388 ATTTAGAAA
1 ATTTAGAAA
82859397 AGTTTTTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (15 bp):
ATTTAGAAATACAAA
Found at i:82859542 original size:9 final size:9
Alignment explanation
Indices: 82859528--82859732 Score: 107
Period size: 9 Copynumber: 22.0 Consensus size: 9
82859518 TAAGTATAAT
82859528 TAAGTTATG
1 TAAGTTATG
82859537 TAAGTTATG
1 TAAGTTATG
* * *
82859546 ATATGATATC
1 -TAAGTTATG
*
82859556 T-ATTTATG
1 TAAGTTATG
82859564 T-A-TTATG
1 TAAGTTATG
*
82859571 TAAGTTAAG
1 TAAGTTATG
82859580 TAAGTTATG
1 TAAGTTATG
*
82859589 TGAGGTGAGGTATG
1 T-A----AGTTATG
82859603 TAAGTTATG
1 TAAGTTATG
*
82859612 TGAGTTATG
1 TAAGTTATG
82859621 TAAGTTATG
1 TAAGTTATG
* *
82859630 ATATGATATATA
1 -TAAG-T-TATG
82859642 TAAGTTATTATG
1 TAAG---TTATG
*
82859654 TAAGTTGTG
1 TAAGTTATG
*
82859663 TGAGTTATG
1 TAAGTTATG
82859672 TAAGTTATG
1 TAAGTTATG
* * *
82859681 ATATGATATA
1 -TAAGTTATG
*
82859691 T-ATTTATG
1 TAAGTTATG
82859699 T-A-TTATG
1 TAAGTTATG
82859706 TAAGTTATG
1 TAAGTTATG
*
82859715 TAAATTATG
1 TAAGTTATG
82859724 TAAGTTATG
1 TAAGTTATG
82859733 AAATTTAAAC
Statistics
Matches: 150, Mismatches: 30, Indels: 32
0.71 0.14 0.15
Matches are distributed among these distances:
7 12 0.08
8 12 0.08
9 86 0.57
10 16 0.11
11 4 0.03
12 10 0.07
13 3 0.02
14 7 0.05
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:82859665 original size:51 final size:52
Alignment explanation
Indices: 82859599--82859733 Score: 211
Period size: 51 Copynumber: 2.6 Consensus size: 52
82859589 TGAGGTGAGG
82859599 TATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATA-TAA-GTTAT
1 TATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATATTAATG-TAT
* *
82859650 TATGTAAGTTGTGTGAGTTATGTAAGTTATGATATGATATATATTTATGTAT
1 TATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATATTAATGTAT
* *
82859702 TATGTAAGTTATGTAAATTATGTAAGTTATGA
1 TATGTAAGTTATGTGAGTTATGTAAGTTATGA
82859734 AATTTAAACT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
51 42 0.55
52 34 0.44
53 1 0.01
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (52 bp):
TATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATATTAATGTAT
Found at i:82862260 original size:38 final size:39
Alignment explanation
Indices: 82862176--82862310 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
82862166 ACCAATATGG
*
82862176 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
82862215 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
82862253 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
82862294 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
82862311 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:82866167 original size:39 final size:40
Alignment explanation
Indices: 82866137--82866224 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 40
82866127 TTGAAGAAGC
* *
82866137 CCGCTAATTCTCGATCTTTAGCGTCGTTTTTCAAACAGCG
1 CCGCTAATACTCGATCTTTAGCGGCGTTTTTCAAACAGCG
* *
82866177 CTGCTAATACTCGATCTTTAGCGGCGTTTTTCAAAAAGCG
1 CCGCTAATACTCGATCTTTAGCGGCGTTTTTCAAACAGCG
*
82866217 CCGTTAAT
1 CCGCTAAT
82866225 GCCACTAGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (40 bp):
CCGCTAATACTCGATCTTTAGCGGCGTTTTTCAAACAGCG
Found at i:82866726 original size:15 final size:15
Alignment explanation
Indices: 82866708--82866737 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
82866698 ACTATACATT
*
82866708 AAACCCTAAACCATA
1 AAACCATAAACCATA
82866723 AAACCATAAACCATA
1 AAACCATAAACCATA
82866738 GACCTTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.13
Consensus pattern (15 bp):
AAACCATAAACCATA
Found at i:82866916 original size:22 final size:21
Alignment explanation
Indices: 82866884--82866953 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 21
82866874 TTTTTGGGGA
82866884 TTTAAGGTTTTAGGATTTAGGG
1 TTTAAGGTTTTAGGA-TTAGGG
* * *
82866906 TTTATGTTTTTAGAAATTAGGG
1 TTTAAGGTTTTAG-GATTAGGG
*
82866928 TTTAAGGTTTAAGGATTAGGGG
1 TTTAAGGTTTTAGGATTA-GGG
82866950 TTTA
1 TTTA
82866954 GAGAAAGCCA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 4 0.10
22 34 0.87
23 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.46
Consensus pattern (21 bp):
TTTAAGGTTTTAGGATTAGGG
Found at i:82867387 original size:40 final size:41
Alignment explanation
Indices: 82867289--82867396 Score: 148
Period size: 40 Copynumber: 2.6 Consensus size: 41
82867279 CGTTTGGATT
* * *
82867289 AAAAACGCCTCTATTGCTCAGTTTTTAGTGGCTTTTTGACCA
1 AAAAATGCCGCTATTGCTCAGTTTTTAGTGGC-TTTGGACCA
*
82867331 AAAAATGCCGCCATTGCTCAGTTTTTAGTGGGC-TTGGA-CA
1 AAAAATGCCGCTATTGCTCAGTTTTTAGT-GGCTTTGGACCA
82867371 AAAAATGCCGCTATTGCTCAGTTTTT
1 AAAAATGCCGCTATTGCTCAGTTTTT
82867397 TGCTGCCTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
40 27 0.45
41 4 0.07
42 26 0.43
43 3 0.05
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (41 bp):
AAAAATGCCGCTATTGCTCAGTTTTTAGTGGCTTTGGACCA
Found at i:82868462 original size:22 final size:22
Alignment explanation
Indices: 82868414--82868463 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
82868404 ATTTATTAAT
* **
82868414 AATA-AAGTGACATAACTTTTC
1 AATATAAGAGACATAACTCATC
82868435 AATATAAGAGACATAACTCATC
1 AATATAAGAGACATAACTCATC
*
82868457 ACTATAA
1 AATATAA
82868464 ATAACGACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (22 bp):
AATATAAGAGACATAACTCATC
Found at i:82884405 original size:42 final size:42
Alignment explanation
Indices: 82884340--82884439 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
82884330 CGGGCTTTGA
* * * *
82884340 GCCTAGCAAGCCTTGTGCTGGTGTATTAAATCGGGCTTTATT
1 GCCTAGCAGGCTTTATGCCGGTGTATTAAATCGGGCTTTATT
*
82884382 GCCTAGCAGGCTTTATGCCGGTGTATTATATCGGGCTTTATT
1 GCCTAGCAGGCTTTATGCCGGTGTATTAAATCGGGCTTTATT
82884424 GCCTAGCAGGCTTTAT
1 GCCTAGCAGGCTTTAT
82884440 TGCCTAGCAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (42 bp):
GCCTAGCAGGCTTTATGCCGGTGTATTAAATCGGGCTTTATT
Found at i:82884437 original size:17 final size:17
Alignment explanation
Indices: 82884415--82884456 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
82884405 TATTATATCG
82884415 GGCTTTATTGCCTAGCA
1 GGCTTTATTGCCTAGCA
82884432 GGCTTTATTGCCTAGCA
1 GGCTTTATTGCCTAGCA
*
82884449 AGCTTTAT
1 GGCTTTAT
82884457 GCCAGTGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (17 bp):
GGCTTTATTGCCTAGCA
Found at i:82884438 original size:59 final size:58
Alignment explanation
Indices: 82884373--82884491 Score: 184
Period size: 59 Copynumber: 2.0 Consensus size: 58
82884363 TATTAAATCG
* * * *
82884373 GGCTTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATATCGGGCTTTATTGCCTAGCA
1 GGCTTTATTGCCTAGCAAGCTTTATGCCAGTGTATTATATCAGGC-CTATTGCCTAGCA
*
82884432 GGCTTTATTGCCTAGCAAGCTTTATGCCAGTGTATTATGTCAGGCCTATTGCCTAGCA
1 GGCTTTATTGCCTAGCAAGCTTTATGCCAGTGTATTATATCAGGCCTATTGCCTAGCA
82884490 GG
1 GG
82884492 TTCTATGCCG
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 14 0.25
59 41 0.75
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.35
Consensus pattern (58 bp):
GGCTTTATTGCCTAGCAAGCTTTATGCCAGTGTATTATATCAGGCCTATTGCCTAGCA
Found at i:82884526 original size:41 final size:41
Alignment explanation
Indices: 82884430--82884530 Score: 118
Period size: 41 Copynumber: 2.5 Consensus size: 41
82884420 TATTGCCTAG
*
82884430 CAGGCTTTATTGCCTAGCAAGCTTTATGCCAGTGTATTATGT
1 CAGGCTTTATTGCCTAGC-AGCTTTATGCCAGTGTATTATCT
* * *
82884472 CAGGC-CTATTGCCTAGCAGGTTCTATGCCGGTGTATTATACT
1 CAGGCTTTATTGCCTAGCAGCTT-TATGCCAGTGTATTAT-CT
82884514 -AGGCTTTA-TGCCTAGCA
1 CAGGCTTTATTGCCTAGCA
82884531 AATTTTATGT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
40 4 0.08
41 39 0.76
42 8 0.16
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.35
Consensus pattern (41 bp):
CAGGCTTTATTGCCTAGCAGCTTTATGCCAGTGTATTATCT
Found at i:82889131 original size:20 final size:19
Alignment explanation
Indices: 82889086--82889132 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
82889076 AGCCCATTCC
*
82889086 AATTTAA-AAATTAATATA
1 AATTTAATAAATTAATAAA
**
82889104 AAGATAATAATATTAATAAA
1 AATTTAATAA-ATTAATAAA
82889124 AATTTAATA
1 AATTTAATA
82889133 TAAAAAAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 5 0.23
19 2 0.09
20 15 0.68
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
AATTTAATAAATTAATAAA
Found at i:82895215 original size:9 final size:9
Alignment explanation
Indices: 82895201--82895232 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
82895191 TCTTAAATTT
82895201 TTTTTTTAC
1 TTTTTTTAC
82895210 TTTTTTTAC
1 TTTTTTTAC
82895219 -TTTTTTAC
1 TTTTTTTAC
82895227 TTTTTT
1 TTTTTT
82895233 CTTATATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:82895222 original size:7 final size:8
Alignment explanation
Indices: 82895202--82895232 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
82895192 CTTAAATTTT
82895202 TTTTTTAC
1 TTTTTTAC
82895210 TTTTTTTAC
1 -TTTTTTAC
82895219 TTTTTTAC
1 TTTTTTAC
82895227 TTTTTT
1 TTTTTT
82895233 CTTATATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTAC
Found at i:82895322 original size:18 final size:17
Alignment explanation
Indices: 82895271--82895318 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
82895261 TTTTTTAAGT
*
82895271 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
*
82895289 TTTATTTTACTTATTTAA
1 TTTATATTA-TTATTTAA
82895307 TTTATATTATTA
1 TTTATATTATTA
82895319 ATTTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:82895331 original size:23 final size:22
Alignment explanation
Indices: 82895305--82895395 Score: 64
Period size: 23 Copynumber: 4.1 Consensus size: 22
82895295 TTACTTATTT
*
82895305 AATTTATATTATTAATTTTAAAA
1 AATTTATAATATT-ATTTTAAAA
*
82895328 AATTTGTAATA-TATATTTAAAA
1 AATTTATAATATTAT-TTTAAAA
**
82895350 TGTTTTATAATATT-TTTT--AA
1 -AATTTATAATATTATTTTAAAA
* *
82895370 AATTTTTAATTATTATTTTTAAA
1 AATTTATAA-TATTATTTTAAAA
82895393 AAT
1 AAT
82895396 ATTTTTTTAC
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
19 6 0.11
20 6 0.11
21 6 0.11
22 11 0.21
23 23 0.43
24 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
AATTTATAATATTATTTTAAAA
Found at i:82895362 original size:21 final size:21
Alignment explanation
Indices: 82895307--82895387 Score: 65
Period size: 23 Copynumber: 3.7 Consensus size: 21
82895297 ACTTATTTAA
* **
82895307 TTTATATTATTAATTTTAAAAAA
1 TTTATAATATT-A-TTTAAAATT
*
82895330 TTTGTAATATATATTTAAAATGT
1 TTTATAATAT-TATTTAAAAT-T
*
82895353 TTTATAATATTTTTTAAAATT
1 TTTATAATATTATTTAAAATT
*
82895374 TTTA-ATTATTATTT
1 TTTATAATATTATTT
82895388 TTAAAAATAT
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
20 8 0.17
21 5 0.10
22 16 0.33
23 18 0.38
24 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTATAATATTATTTAAAATT
Found at i:82895368 original size:22 final size:23
Alignment explanation
Indices: 82895334--82895400 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
82895324 AAAAAATTTG
*
82895334 TAATATATATTTAAAATGTTTT-A-
1 TAATAT-TTTTTAAAAT-TTTTAAT
82895357 TAATATTTTTTAAAATTTTTAAT
1 TAATATTTTTTAAAATTTTTAAT
* *
82895380 TATTATTTTTAAAAATATTTT
1 TAATATTTTTTAAAAT-TTTT
82895401 TTTACTTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
21 4 0.11
22 10 0.26
23 20 0.53
24 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (23 bp):
TAATATTTTTTAAAATTTTTAAT
Found at i:82895485 original size:37 final size:37
Alignment explanation
Indices: 82895414--82895484 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
82895404 ACTTTATATA
*
82895414 TATTTTTGAAATTAATTATTTATAAATTTTAAAAATG
1 TATTTTTCAAATTAATTATTTATAAATTTTAAAAATG
*
82895451 TATTTTTCAAATTAATTTTTTAT-AATTTTAAAAA
1 TATTTTTCAAATTAATTATTTATAAATTTTAAAAA
82895485 AATAATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 11 0.34
37 21 0.66
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (37 bp):
TATTTTTCAAATTAATTATTTATAAATTTTAAAAATG
Found at i:82896176 original size:10 final size:9
Alignment explanation
Indices: 82896144--82896241 Score: 56
Period size: 10 Copynumber: 10.6 Consensus size: 9
82896134 AAATTCTATG
82896144 TAAAAT-TT
1 TAAAATATT
* *
82896152 AAAAAAATT
1 TAAAATATT
82896161 TAAAATCATT
1 TAAAAT-ATT
82896171 TAAAATATT
1 TAAAATATT
*
82896180 AAAAAATATT
1 -TAAAATATT
*
82896190 TTAAATCATT
1 TAAAAT-ATT
* *
82896200 TTAAATGTTT
1 TAAAAT-ATT
*
82896210 TATAATATT
1 TAAAATATT
*
82896219 AAAAATATAT
1 TAAAATAT-T
*
82896229 T-TAATATT
1 TAAAATATT
82896237 TAAAA
1 TAAAA
82896242 AATAATTTGA
Statistics
Matches: 67, Mismatches: 17, Indels: 11
0.71 0.18 0.12
Matches are distributed among these distances:
8 6 0.09
9 28 0.42
10 33 0.49
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (9 bp):
TAAAATATT
Found at i:82896184 original size:29 final size:27
Alignment explanation
Indices: 82896126--82896205 Score: 88
Period size: 29 Copynumber: 2.8 Consensus size: 27
82896116 TAAAAATTAT
*
82896126 AAATTTCAAAATTCTATGTAAAATTTAAAA
1 AAATTT-AAAA-TC-ATTTAAAATTTAAAA
82896156 AAATTTAAAATCATTTAAAATATTAAAA
1 AAATTTAAAATCATTTAAAAT-TTAAAA
* *
82896184 AATATTTTAAATCATTTTAAAT
1 AA-ATTTAAAATCATTTAAAAT
82896206 GTTTTATAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 8 0.18
28 10 0.22
29 21 0.47
30 6 0.13
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (27 bp):
AAATTTAAAATCATTTAAAATTTAAAA
Found at i:82896185 original size:20 final size:19
Alignment explanation
Indices: 82896162--82896257 Score: 70
Period size: 19 Copynumber: 4.8 Consensus size: 19
82896152 AAAAAAATTT
82896162 AAAATCATTTAAAATATTAA
1 AAAAT-ATTTAAAATATTAA
* *
82896182 AAAATATTTTAAATCATT-T
1 AAAATATTTAAAAT-ATTAA
* * *
82896201 TAAATGTTTTATAATATTAA
1 AAAAT-ATTTAAAATATTAA
*
82896221 AAATATATTTAATAT-TTAA
1 AAA-ATATTTAAAATATTAA
82896240 AAAATAATTTGAAAATAT
1 AAAAT-ATTT-AAAATAT
82896258 ATTTTTAATA
Statistics
Matches: 57, Mismatches: 12, Indels: 13
0.70 0.15 0.16
Matches are distributed among these distances:
18 2 0.04
19 26 0.46
20 26 0.46
21 3 0.05
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
AAAATATTTAAAATATTAA
Found at i:82896245 original size:29 final size:29
Alignment explanation
Indices: 82896148--82896277 Score: 79
Period size: 29 Copynumber: 4.3 Consensus size: 29
82896138 TCTATGTAAA
* * *
82896148 ATTTAAAAAA-ATTTAAAAT-CATTTAAA
1 ATTTAAAAAATATTAAAAATATATTTAAT
**
82896175 ATATTAAAAAATATTTTAAATCAT-TTTAA-
1 AT-TTAAAAAATATTAAAAAT-ATATTTAAT
** *
82896204 ATGTTTTATAATATTAAAAATATATTTAAT
1 AT-TTAAAAAATATTAAAAATATATTTAAT
*
82896234 ATTTAAAAAATAATTTGAAAATATATTTTTAAT
1 ATTTAAAAAAT-A-TT-AAAA-ATATATTTAAT
82896267 ATTTATAAAAA
1 ATTTA-AAAAA
82896278 AATATATTAT
Statistics
Matches: 80, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
27 2 0.03
28 10 0.12
29 34 0.43
30 8 0.10
31 2 0.03
32 4 0.05
33 15 0.19
34 5 0.06
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (29 bp):
ATTTAAAAAATATTAAAAATATATTTAAT
Found at i:82896258 original size:31 final size:34
Alignment explanation
Indices: 82896211--82896300 Score: 107
Period size: 33 Copynumber: 2.7 Consensus size: 34
82896201 TAAATGTTTT
82896211 ATAATATTAAAAATATA-TTTAATATTTA-AAAA
1 ATAATATTAAAAATATATTTTAATATTTATAAAA
*
82896243 ATAAT-TTGAAAATATATTTTTAATATTTATAAAA
1 ATAATATTAAAAATATA-TTTTAATATTTATAAAA
*
82896277 AAATATATTATAAAATAT-TTTTAA
1 ATA-ATATTA-AAAATATATTTTAA
82896301 AAAATACATT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
31 10 0.20
32 5 0.10
33 11 0.22
34 6 0.12
35 8 0.16
36 2 0.04
37 7 0.14
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (34 bp):
ATAATATTAAAAATATATTTTAATATTTATAAAA
Found at i:82896285 original size:25 final size:26
Alignment explanation
Indices: 82896251--82896304 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
82896241 AAATAATTTG
**
82896251 AAAATATATT-TTTAATATTTATAAA
1 AAAATATATTATAAAATATTTATAAA
*
82896276 AAAATATATTATAAAATATTTTTAAA
1 AAAATATATTATAAAATATTTATAAA
82896302 AAA
1 AAA
82896305 TACATTTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
AAAATATATTATAAAATATTTATAAA
Found at i:82899796 original size:30 final size:30
Alignment explanation
Indices: 82899760--82899882 Score: 158
Period size: 30 Copynumber: 4.1 Consensus size: 30
82899750 GGTCAAATGG
* *
82899760 ACTCGAACCGCCTATATCCGGGTGATATGA
1 ACTCGAACCACCTATGTCCGGGTGATATGA
* *
82899790 ACTCGAACCACCCATGTCTGGGTGATATGA
1 ACTCGAACCACCTATGTCCGGGTGATATGA
* *
82899820 ACTTGAACCATAC-ATGTCCGGGTGATATGA
1 ACTCGAACCA-CCTATGTCCGGGTGATATGA
* *
82899850 ACTCGAACCACCTATGTCCGAGTTATATGA
1 ACTCGAACCACCTATGTCCGGGTGATATGA
82899880 ACT
1 ACT
82899883 GCTCTGGGAC
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
29 1 0.01
30 78 0.98
31 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (30 bp):
ACTCGAACCACCTATGTCCGGGTGATATGA
Found at i:82905183 original size:18 final size:18
Alignment explanation
Indices: 82905148--82905190 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
82905138 TAAAAAATAT
*
82905148 ATTTAATATATATTTTTAA
1 ATTT-ATATATATATTTAA
*
82905167 ATTTATATTTATATTTAA
1 ATTTATATATATATTTAA
82905185 ATTTAT
1 ATTTAT
82905191 TAATCATCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTATATATATATTTAA
Found at i:82905321 original size:21 final size:21
Alignment explanation
Indices: 82905293--82905369 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 21
82905283 TTAAAAAAAG
82905293 AATTT-AAAAATAATATT-TAA
1 AATTTAAAAAAT-ATATTATAA
82905313 AATTGTAAAAAATATATTATAAAA
1 AATT-TAAAAAATATATTAT--AA
* * * *
82905337 AATTTTAAATATACATTACAA
1 AATTTAAAAAATATATTATAA
*
82905358 AATTTTAAAAAT
1 AATTTAAAAAAT
82905370 TAATAATAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 4 0.09
21 19 0.40
22 7 0.15
23 11 0.23
24 6 0.13
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (21 bp):
AATTTAAAAAATATATTATAA
Found at i:82905380 original size:21 final size:21
Alignment explanation
Indices: 82905295--82905381 Score: 52
Period size: 21 Copynumber: 4.0 Consensus size: 21
82905285 AAAAAAAGAA
*
82905295 TTTAAAAATA-ATATTTAAAAT
1 TTTAAAAATATATA-ATAAAAT
* *
82905316 TGTAAAAAATATATTATAAAAAAT
1 T-TTAAAAATATA-TA-ATAAAAT
* * * *
82905340 TTTAAATATACATTACAAAAT
1 TTTAAAAATATATAATAAAAT
82905361 TTTAAAAAT-TAATAATAAAAT
1 TTTAAAAATAT-ATAATAAAAT
82905382 AAATAAACAA
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
21 23 0.46
22 9 0.18
23 9 0.18
24 9 0.18
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (21 bp):
TTTAAAAATATATAATAAAAT
Found at i:82905442 original size:34 final size:33
Alignment explanation
Indices: 82905385--82905462 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 33
82905375 ATAAAATAAA
*
82905385 TAAACAAAATAAAATAAGAAAAAA-ACATAAAATT
1 TAAA-AAAATAAAAAAAGAAAAAAGACA-AAAATT
* * *
82905419 TCAAAAAAGTAAAAAAAGGAAAAAGACAAAATTT
1 T-AAAAAAATAAAAAAAGAAAAAAGACAAAAATT
82905453 TAAAAAAATA
1 TAAAAAAATA
82905463 TTTAAAATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
33 8 0.22
34 23 0.62
35 6 0.16
ACGTcount: A:0.72, C:0.05, G:0.06, T:0.17
Consensus pattern (33 bp):
TAAAAAAATAAAAAAAGAAAAAAGACAAAAATT
Found at i:82905505 original size:25 final size:27
Alignment explanation
Indices: 82905461--82905525 Score: 80
Period size: 25 Copynumber: 2.4 Consensus size: 27
82905451 TTTAAAAAAA
* *
82905461 TATTTAAAATATTATGATTTCTTATAT-
1 TATTTAAAA-ATTATAATTTCTTAAATG
*
82905488 TA-TTAAAAATTATAATTTTTTAAATG
1 TATTTAAAAATTATAATTTCTTAAATG
82905514 TATTTAAAAATT
1 TATTTAAAAATT
82905526 GTATTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 14 0.42
26 8 0.24
27 11 0.33
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (27 bp):
TATTTAAAAATTATAATTTCTTAAATG
Found at i:82905744 original size:18 final size:18
Alignment explanation
Indices: 82905702--82905748 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
82905692 TTATAAAATA
*
82905702 ATATTT-AATATATATTT
1 ATATTTAAATTTATATTT
*
82905719 -T-TTAAAATTTATATTT
1 ATATTTAAATTTATATTT
82905735 ATATTTAAATTTAT
1 ATATTTAAATTTAT
82905749 TAATAGTCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
15 2 0.08
16 11 0.46
17 1 0.04
18 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTTAAATTTATATTT
Found at i:82906039 original size:21 final size:21
Alignment explanation
Indices: 82906014--82906098 Score: 68
Period size: 21 Copynumber: 4.0 Consensus size: 21
82906004 TAAAAAATAT
82906014 TTTTAAAAATAATAATTAAAA
1 TTTTAAAAATAATAATTAAAA
* *
82906035 TTTTAAAAA-ATATTATAAAACA
1 TTTTAAAAATA-ATAATTAAA-A
*
82906057 TTTTAAATAT-AT-ATTACAAA
1 TTTTAAAAATAATAATTA-AAA
*
82906077 TTTTTAAAATTAATAATATAAA
1 -TTTTAAAAATAATAAT-TAAA
82906099 TTAAATAAGC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
20 5 0.10
21 28 0.56
22 11 0.22
23 4 0.08
24 2 0.04
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TTTTAAAAATAATAATTAAAA
Found at i:82906043 original size:22 final size:21
Alignment explanation
Indices: 82906012--82906085 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
82906002 GTTAAAAAAT
82906012 ATTTTTAAAAATAATAATTAAA
1 ATTTTTAAAAAT-ATAATTAAA
* *
82906034 ATTTTAAAAAATATTA-TAAA
1 ATTTTTAAAAATATAATTAAA
* *
82906054 ACATTTTAAATATAT-ATTACAA
1 A-TTTTTAAAAATATAATTA-AA
82906076 ATTTTTAAAA
1 ATTTTTAAAA
82906086 TTAATAATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
20 6 0.14
21 22 0.52
22 14 0.33
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTTTTAAAAATATAATTAAA
Found at i:82906099 original size:22 final size:21
Alignment explanation
Indices: 82906012--82906100 Score: 67
Period size: 22 Copynumber: 4.1 Consensus size: 21
82906002 GTTAAAAAAT
82906012 ATTTTTAAAAATAATAAT-TAA
1 ATTTTT-AAAATAATAATATAA
* *
82906033 AATTTTAAAA-AATATTATAAA
1 ATTTTTAAAATAATAATAT-AA
* * *
82906054 ACATTTT-AAATATATATTACAA
1 A-TTTTTAAAATA-ATAATATAA
82906076 ATTTTTAAAATTAATAATATAA
1 ATTTTTAAAA-TAATAATATAA
82906098 ATT
1 ATT
82906101 AAATAAGCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
19 5 0.09
20 5 0.09
21 15 0.27
22 22 0.40
23 8 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTTTTAAAATAATAATATAA
Found at i:82906133 original size:18 final size:18
Alignment explanation
Indices: 82906083--82906134 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
82906073 CAAATTTTTA
*
82906083 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
** *
82906101 AAATAAGCAAAATAAATT
1 AAATAAATAATATAAATT
82906119 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
82906135 ACTTAAAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:82906191 original size:9 final size:9
Alignment explanation
Indices: 82906177--82906207 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
82906167 AAAATATAAG
82906177 AAAAAAAGT
1 AAAAAAAGT
82906186 -AAAAAAGT
1 AAAAAAAGT
82906194 AAAAAAAGT
1 AAAAAAAGT
82906203 AAAAA
1 AAAAA
82906208 TAATATAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (9 bp):
AAAAAAAGT
Found at i:82906197 original size:7 final size:8
Alignment explanation
Indices: 82906178--82906207 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
82906168 AAATATAAGA
82906178 AAAAAAGT
1 AAAAAAGT
82906186 AAAAAAGT
1 AAAAAAGT
82906194 AAAAAAAGT
1 -AAAAAAGT
82906203 AAAAA
1 AAAAA
82906208 TAATATAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (8 bp):
AAAAAAGT
Found at i:82908935 original size:14 final size:14
Alignment explanation
Indices: 82908918--82908962 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
82908908 TAATTAACCC
82908918 TAAATTTTTAAAAT
1 TAAATTTTTAAAAT
*
82908932 TAAA---TTAAATT
1 TAAATTTTTAAAAT
82908943 TAAATTTTTAAAAT
1 TAAATTTTTAAAAT
82908957 TAAATT
1 TAAATT
82908963 AAATTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 10 0.38
14 16 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TAAATTTTTAAAAT
Found at i:82908938 original size:25 final size:25
Alignment explanation
Indices: 82908909--82908976 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
82908899 ATTTATCTAT
*
82908909 AATTAACCCTAAATTTTTAAAATTA
1 AATTAAACCTAAATTTTTAAAATTA
**
82908934 AATTAAATTTAAATTTTTAAAATTA
1 AATTAAACCTAAATTTTTAAAATTA
**
82908959 AATTAAATTTAAATTTTT
1 AATTAAACCTAAATTTTT
82908977 TTTTGAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (25 bp):
AATTAAACCTAAATTTTTAAAATTA
Found at i:82908945 original size:6 final size:6
Alignment explanation
Indices: 82908924--82908974 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
82908914 ACCCTAAATT
* *
82908924 TTTAAA ATTAAA -TTAAA TTTAAA TTTTTAAA ATTAAA -TTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA --TTTAAA TTTAAA TTTAAA TTTAAA
82908972 TTT
1 TTT
82908975 TTTTTTGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
5 10 0.26
6 23 0.59
8 6 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
TTTAAA
Found at i:82909132 original size:20 final size:17
Alignment explanation
Indices: 82909086--82909140 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 17
82909076 TTTTTATAAA
82909086 TTTTATTATATGTTATAT
1 TTTTATTATATGTTAT-T
82909104 TTTTATTATATGTTATT
1 TTTTATTATATGTTATT
*
82909121 TATTCTATTTATATTTTATT
1 T-TT-TA-TTATATGTTATT
82909141 ATATATTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
17 2 0.06
18 18 0.55
19 2 0.06
20 11 0.33
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (17 bp):
TTTTATTATATGTTATT
Found at i:82909155 original size:27 final size:29
Alignment explanation
Indices: 82909098--82909162 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
82909088 TTATTATATG
* *
82909098 TTATATTTTTATTATATGTTATTTATTCTAT
1 TTATA-TTTTATTATATATTAGTTA-TCTAT
82909129 TTATATTTTATTATATATT-GTTA-CTAT
1 TTATATTTTATTATATATTAGTTATCTAT
*
82909156 ATATATT
1 TTATATT
82909163 GATTATTCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 10 0.32
29 3 0.10
30 13 0.42
31 5 0.16
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (29 bp):
TTATATTTTATTATATATTAGTTATCTAT
Found at i:82916121 original size:23 final size:24
Alignment explanation
Indices: 82916089--82916134 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
82916079 TAACAAGCAT
*
82916089 ATTTAATTTTTATATAAA-TTTTC
1 ATTTAATTTTTACATAAAGTTTTC
*
82916112 ATTTATTTTTTACATAAAGTTTT
1 ATTTAATTTTTACATAAAGTTTT
82916135 TATACACATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (24 bp):
ATTTAATTTTTACATAAAGTTTTC
Found at i:82922000 original size:33 final size:33
Alignment explanation
Indices: 82921915--82922001 Score: 138
Period size: 33 Copynumber: 2.6 Consensus size: 33
82921905 TCTTTCTGAG
* * *
82921915 TGGTACACATAAAGTATACATTTCCTTTTCATA
1 TGGTATACACAAAGTATACCTTTCCTTTTCATA
*
82921948 TGGTATATACAAAGTATACCTTTCCTTTTCATA
1 TGGTATACACAAAGTATACCTTTCCTTTTCATA
82921981 TGGTATACACAAAGTATACCT
1 TGGTATACACAAAGTATACCT
82922002 AACATTTCCA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.38
Consensus pattern (33 bp):
TGGTATACACAAAGTATACCTTTCCTTTTCATA
Found at i:82922046 original size:32 final size:32
Alignment explanation
Indices: 82921987--82922063 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
82921977 CATATGGTAT
* *
82921987 ACACAAAGTATACCTAACATTTCCAAGTGTAC
1 ACACAAAGTGTACATAACATTTCCAAGTGTAC
*
82922019 ACACAAAGTGTACATAAC-CTTCTCAAGTGTAC
1 ACACAAAGTGTACATAACATTTC-CAAGTGTAC
* *
82922051 ACATATAGTGTAC
1 ACACAAAGTGTAC
82922064 TTTTCCTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 3 0.08
32 36 0.92
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (32 bp):
ACACAAAGTGTACATAACATTTCCAAGTGTAC
Found at i:82923732 original size:22 final size:22
Alignment explanation
Indices: 82923706--82923755 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
82923696 GCATCCTATG
*
82923706 TGATAGGTATTGAAATATTCCA
1 TGATAGGAATTGAAATATTCCA
82923728 TGATAGGAATTGAAATATTCCA
1 TGATAGGAATTGAAATATTCCA
82923750 TGATAG
1 TGATAG
82923756 ATTACAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (22 bp):
TGATAGGAATTGAAATATTCCA
Found at i:82940937 original size:25 final size:25
Alignment explanation
Indices: 82940891--82940938 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
82940881 TAAATGAAAA
*
82940891 GGAAATTTCAAGAAATATATAAAGG
1 GGAAATTTCAAGAAATAAATAAAGG
*
82940916 GGAAATTTACTAGAAA-AAATAAA
1 GGAAATTT-CAAGAAATAAATAAA
82940939 TCCATCGGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.56, C:0.04, G:0.17, T:0.23
Consensus pattern (25 bp):
GGAAATTTCAAGAAATAAATAAAGG
Found at i:82955135 original size:24 final size:23
Alignment explanation
Indices: 82955091--82955137 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
82955081 CACATTATAC
*
82955091 TTTTTCTTATATTATTTATTTTA
1 TTTTTCTTATATAATTTATTTTA
82955114 TTTTT-TTATATAAATTTAATTTTA
1 TTTTTCTTATAT-AATTT-ATTTTA
82955138 AGTATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 9 0.43
24 6 0.29
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTTTCTTATATAATTTATTTTA
Found at i:82955217 original size:24 final size:24
Alignment explanation
Indices: 82955190--82955236 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
82955180 TGGTATAGTA
*
82955190 TAAATACTAATATTTTTAATTATT
1 TAAATACTAATAATTTTAATTATT
** *
82955214 TAAATTTTCATAATTTTAATTAT
1 TAAATACTAATAATTTTAATTAT
82955237 AATTTAGCAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (24 bp):
TAAATACTAATAATTTTAATTATT
Found at i:82962212 original size:23 final size:23
Alignment explanation
Indices: 82962162--82962205 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
82962152 TTTTGCTTTG
*
82962162 TTGTTTAGCTAAATGGGCTTAGA
1 TTGTCTAGCTAAATGGGCTTAGA
82962185 TTGTCTAGCTAAATGGG-TTAG
1 TTGTCTAGCTAAATGGGCTTAG
82962206 GTCTGTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.25, C:0.09, G:0.27, T:0.39
Consensus pattern (23 bp):
TTGTCTAGCTAAATGGGCTTAGA
Found at i:82965255 original size:15 final size:15
Alignment explanation
Indices: 82965231--82965260 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
82965221 TAAATTCGAC
82965231 ACTTAATTTTTTAAT
1 ACTTAATTTTTTAAT
*
82965246 ACTTATTTTTTTAAT
1 ACTTAATTTTTTAAT
82965261 TTATGAAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ACTTAATTTTTTAAT
Found at i:82965488 original size:24 final size:24
Alignment explanation
Indices: 82965461--82965516 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
82965451 ATATAAATAG
*
82965461 AAATAGTAGATTTAGAATT-TA-TAT
1 AAATA-TAAATTTAG-ATTATAGTAT
82965485 AAATATAAATTTAGATTATAGTAT
1 AAATATAAATTTAGATTATAGTAT
82965509 AAATATAA
1 AAATATAA
82965517 TAAAATAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 3 0.10
23 10 0.34
24 16 0.55
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (24 bp):
AAATATAAATTTAGATTATAGTAT
Found at i:82965515 original size:30 final size:30
Alignment explanation
Indices: 82965449--82965523 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 30
82965439 GTGTTATTGA
82965449 AAATATAAATAGAAATAGTAGATTTAGAAT
1 AAATATAAATAGAAATAGTAGATTTAGAAT
** * * *
82965479 TTATATAAATATAAAT-TTAGATTATAGTAT
1 AAATATAAATAGAAATAGTAGATT-TAGAAT
82965509 AAATAT-AATA-AAATA
1 AAATATAAATAGAAATA
82965524 ATAATATTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
28 4 0.11
29 10 0.28
30 22 0.61
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (30 bp):
AAATATAAATAGAAATAGTAGATTTAGAAT
Found at i:82973131 original size:43 final size:44
Alignment explanation
Indices: 82973083--82973230 Score: 178
Period size: 43 Copynumber: 3.4 Consensus size: 44
82973073 TAACGAGACA
*
82973083 TGATTATGTGTAAAACCATGTCTAGGACATTGGCATCATAT-TG
1 TGATTATGTGTAAGACCATGTCTAGGACATTGGCATCATATATG
* * * *
82973126 TGATTACGTGTAAGACCATGTCTGGGACATTGACATCGT-TATG
1 TGATTATGTGTAAGACCATGTCTAGGACATTGGCATCATATATG
*
82973169 TGATT-TCATGTAAGACCATGTCTAGGACATTGGCATCA-ATATG
1 TGATTAT-GTGTAAGACCATGTCTAGGACATTGGCATCATATATG
* **
82973212 TGATAACATGTAAGACCAT
1 TGATTATGTGTAAGACCAT
82973231 ATCTGGGATA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
42 1 0.01
43 88 0.99
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (44 bp):
TGATTATGTGTAAGACCATGTCTAGGACATTGGCATCATATATG
Found at i:82977459 original size:12 final size:12
Alignment explanation
Indices: 82977442--82977467 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
82977432 TATTTTACCC
82977442 AATTTCTTCAAT
1 AATTTCTTCAAT
82977454 AATTTCTTCAAT
1 AATTTCTTCAAT
82977466 AA
1 AA
82977468 CATTAATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (12 bp):
AATTTCTTCAAT
Found at i:82978668 original size:25 final size:27
Alignment explanation
Indices: 82978620--82978669 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
82978610 TTAGTGTAAG
82978620 TATTTTATTTAAATTATTAAAATATAT
1 TATTTTATTTAAATTATTAAAATATAT
*
82978647 TATTTT-TTTAAA-TATTTAAATAT
1 TATTTTATTTAAATTATTAAAATAT
82978670 TGCAATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 6 0.27
27 6 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
TATTTTATTTAAATTATTAAAATATAT
Found at i:82978870 original size:21 final size:20
Alignment explanation
Indices: 82978846--82978888 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
82978836 ATATATTATT
82978846 TATAAAATT-TTATATATGAAA
1 TATAAAATTGTT-TATAT-AAA
82978867 TATAAAATTGTTTATATAAA
1 TATAAAATTGTTTATATAAA
82978887 TA
1 TA
82978889 ATTAAAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.24
21 14 0.67
22 2 0.10
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
TATAAAATTGTTTATATAAA
Found at i:82979109 original size:17 final size:15
Alignment explanation
Indices: 82979080--82979123 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 15
82979070 ATAAATATAA
82979080 TAAATTTTTATAAAC
1 TAAATTTTTATAAAC
*
82979095 TAAATATTTTAATAAAAT
1 TAAAT-TTTT-AT-AAAC
82979113 TAAATTTTTAT
1 TAAATTTTTAT
82979124 TTATAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 5 0.20
16 6 0.24
17 6 0.24
18 8 0.32
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
TAAATTTTTATAAAC
Found at i:82981917 original size:20 final size:21
Alignment explanation
Indices: 82981876--82981917 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
82981866 TTTATGCATG
*
82981876 TGTATTGGGATGAGTTTGATT
1 TGTATTGGGATGAGTATGATT
82981897 TGTATT-GGATGAAGTAT-ATT
1 TGTATTGGGATG-AGTATGATT
82981917 T
1 T
82981918 TGGCAGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.48
Consensus pattern (21 bp):
TGTATTGGGATGAGTATGATT
Found at i:82982169 original size:24 final size:24
Alignment explanation
Indices: 82982124--82982169 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
82982114 AATCTATGTT
* **
82982124 TGCATTTGTATCTGAATTTGAATA
1 TGCATCTGTATCTGAACCTGAATA
*
82982148 TGCATCTGTATTTGAACCTGAA
1 TGCATCTGTATCTGAACCTGAA
82982170 AAATACATCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.41
Consensus pattern (24 bp):
TGCATCTGTATCTGAACCTGAATA
Found at i:82983048 original size:26 final size:28
Alignment explanation
Indices: 82982984--82983049 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 28
82982974 TATATTTTAT
*
82982984 ATTTAAATATTTAAATATTTTTTTGAAG
1 ATTTAAATATTTAAATATTTATTTGAAG
* *
82983012 AGTT--ATGTTTAAATATTTATTTG-A-
1 ATTTAAATATTTAAATATTTATTTGAAG
*
82983036 CTTTAAATATTTAA
1 ATTTAAATATTTAA
82983050 GATACATAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
24 2 0.07
25 1 0.03
26 24 0.80
28 3 0.10
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.53
Consensus pattern (28 bp):
ATTTAAATATTTAAATATTTATTTGAAG
Found at i:82996992 original size:21 final size:21
Alignment explanation
Indices: 82996946--82997005 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
82996936 CGAATACGCC
82996946 AACAGAAGCTCG-AA-AGCTG
1 AACAGAAGCTCGTAAGAGCTG
* *
82996965 AATAGAAGCTCGTAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTG
*
82996986 AACAGAAGCTTGTAAGAGCT
1 AACAGAAGCTCGTAAGAGCT
82997006 AATCCACCTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 11 0.32
20 2 0.06
21 21 0.62
ACGTcount: A:0.40, C:0.15, G:0.27, T:0.18
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:83004033 original size:42 final size:42
Alignment explanation
Indices: 83003974--83004071 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 42
83003964 AATTAATCAC
* *
83003974 ATTAATATTAAAT-TAATAAAATATTATCTAAATAAATATTGA
1 ATTAA-ATTAAATATAATAAAATAATATCTAAATAAATATTAA
* * *
83004016 ATTAAATTAAATATAATATATTAATATCTAGATAAATATTAA
1 ATTAAATTAAATATAATAAAATAATATCTAAATAAATATTAA
*
83004058 ATTCAATTAAATAT
1 ATTAAATTAAATAT
83004072 TAAATTCATT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 7 0.14
42 42 0.86
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (42 bp):
ATTAAATTAAATATAATAAAATAATATCTAAATAAATATTAA
Found at i:83004070 original size:17 final size:16
Alignment explanation
Indices: 83004048--83004084 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 16
83004038 AATATCTAGA
83004048 TAAATATTAAATTCAAT
1 TAAATATTAAATTC-AT
83004065 TAAATATTAAATTCAT
1 TAAATATTAAATTCAT
83004081 TAAA
1 TAAA
83004085 AAAATATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
TAAATATTAAATTCAT
Found at i:83010394 original size:15 final size:15
Alignment explanation
Indices: 83010374--83010458 Score: 64
Period size: 15 Copynumber: 5.7 Consensus size: 15
83010364 TAAAATATCC
83010374 AGAAACCCAAGATAA
1 AGAAACCCAAGATAA
* ***
83010389 AGAAACCTGAA-ACGG
1 AGAAACC-CAAGATAA
* *
83010404 AGAAGCCCAGGATAA
1 AGAAACCCAAGATAA
*
83010419 AGAAATCCAAGATAA
1 AGAAACCCAAGATAA
* *
83010434 AGAAATCCATGATAA
1 AGAAACCCAAGATAA
*
83010449 AGAAATCCAA
1 AGAAACCCAA
83010459 TTTACAGCAC
Statistics
Matches: 53, Mismatches: 15, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
14 1 0.02
15 50 0.94
16 2 0.04
ACGTcount: A:0.54, C:0.18, G:0.18, T:0.11
Consensus pattern (15 bp):
AGAAACCCAAGATAA
Found at i:83040021 original size:18 final size:17
Alignment explanation
Indices: 83039998--83040031 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
83039988 AGGTTTGCTA
83039998 GATACCAATAGTTCACAT
1 GATACCAA-AGTTCACAT
*
83040016 GATACCTAAGTTCACA
1 GATACCAAAGTTCACA
83040032 ACAGGCAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (17 bp):
GATACCAAAGTTCACAT
Found at i:83040366 original size:21 final size:22
Alignment explanation
Indices: 83040335--83040375 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
83040325 AGATGGAGAT
*
83040335 AAAAACTAAACCCTGAAAACCC
1 AAAAACTAAACCCTCAAAACCC
83040357 AAAAAC-AAACCCTCAAAAC
1 AAAAACTAAACCCTCAAAAC
83040376 GTAAATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.59, C:0.32, G:0.02, T:0.07
Consensus pattern (22 bp):
AAAAACTAAACCCTCAAAACCC
Found at i:83043569 original size:17 final size:18
Alignment explanation
Indices: 83043536--83043569 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
83043526 AATTTGGAAT
*
83043536 TTTTATAAATATATTTTA
1 TTTTAAAAATATATTTTA
83043554 TTTTAAAAAT-TATTTT
1 TTTTAAAAATATATTTT
83043570 GAATTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTAAAAATATATTTTA
Found at i:83045543 original size:22 final size:21
Alignment explanation
Indices: 83045502--83045545 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
83045492 GAGTTTTTAG
*
83045502 AAATAATTAATATATGTAATA
1 AAATAATTAATATATATAATA
83045523 AAATACATTACATA-ATATAATA
1 AAATA-ATTA-ATATATATAATA
83045545 A
1 A
83045546 TTCAAGGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 12 0.60
23 3 0.15
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (21 bp):
AAATAATTAATATATATAATA
Found at i:83045770 original size:27 final size:25
Alignment explanation
Indices: 83045731--83045783 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
83045721 AATAAAAATG
* *
83045731 ATATAATATAATAATTTACATATATAA
1 ATATAATAAAATAA-ATA-ATATATAA
*
83045758 ATATAGTAAAATAAATAATATATAA
1 ATATAATAAAATAAATAATATATAA
83045783 A
1 A
83045784 GTAAAATGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 9 0.39
26 2 0.09
27 12 0.52
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (25 bp):
ATATAATAAAATAAATAATATATAA
Found at i:83048461 original size:26 final size:26
Alignment explanation
Indices: 83048423--83048480 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
83048413 CATGAAATTC
83048423 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
83048449 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
83048475 TTATCA
1 TTATCA
83048481 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:83051636 original size:21 final size:20
Alignment explanation
Indices: 83051612--83051650 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
83051602 GAGTATTTTG
83051612 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
83051633 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
83051651 ACAAGTTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:83063927 original size:21 final size:22
Alignment explanation
Indices: 83063875--83063932 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
83063865 TGTGTAGGGG
* *
83063875 ACTACATGCCCATGTGGAGGCC
1 ACTACATGCCCATATGAAGGCC
* *
83063897 AC-ACACGCCCGTATGAAGGCC
1 ACTACATGCCCATATGAAGGCC
83063918 -CTACATGCCCATATG
1 ACTACATGCCCATATG
83063933 GAGGGGGCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 1 0.03
21 26 0.90
22 2 0.07
ACGTcount: A:0.26, C:0.34, G:0.22, T:0.17
Consensus pattern (22 bp):
ACTACATGCCCATATGAAGGCC
Found at i:83065287 original size:28 final size:29
Alignment explanation
Indices: 83065232--83065287 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
83065222 ATTTATAAAG
* *
83065232 GGTTTTAGTTGAGCCTTGTAAAAATTAGAA
1 GGTTTTAGTTAAGCC-TATAAAAATTAGAA
83065262 GGTTTTAGTTAAGCC-ATAAAAATTAG
1 GGTTTTAGTTAAGCCTATAAAAATTAG
83065288 GGAAAAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.42
30 14 0.58
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (29 bp):
GGTTTTAGTTAAGCCTATAAAAATTAGAA
Found at i:83068350 original size:2 final size:2
Alignment explanation
Indices: 83068343--83068392 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
83068333 TGCATCAAGA
83068343 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
83068385 TG TG TG TG
1 TG TG TG TG
83068393 ATGGAGTTCT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:83071762 original size:23 final size:20
Alignment explanation
Indices: 83071713--83071750 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
83071703 AATATCTTAT
83071713 TAAAATAT-TAATTAAATAA
1 TAAAATATCTAATTAAATAA
*
83071732 T-AATTATCTAATTAAATAA
1 TAAAATATCTAATTAAATAA
83071751 CTATAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAAATATCTAATTAAATAA
Found at i:83071995 original size:31 final size:30
Alignment explanation
Indices: 83071960--83072018 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
83071950 CACCCTTAAA
* * *
83071960 ATATTTTCACTATTAGTCCTTCAATTTTTTC
1 ATATTTACACT-TTAATCCTTCAAATTTTTC
*
83071991 ATATTTACACTTTAATCGTTCAAATTTT
1 ATATTTACACTTTAATCCTTCAAATTTT
83072019 GAGCATTTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.27, C:0.17, G:0.03, T:0.53
Consensus pattern (30 bp):
ATATTTACACTTTAATCCTTCAAATTTTTC
Found at i:83075359 original size:16 final size:17
Alignment explanation
Indices: 83075338--83075371 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
83075328 TATATTTATA
83075338 GAATATA-TGCATATTT
1 GAATATATTGCATATTT
*
83075354 GAATATATTGCATTTTT
1 GAATATATTGCATATTT
83075371 G
1 G
83075372 CACATCTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (17 bp):
GAATATATTGCATATTT
Found at i:83078331 original size:48 final size:48
Alignment explanation
Indices: 83078279--83078397 Score: 148
Period size: 48 Copynumber: 2.5 Consensus size: 48
83078269 GATAGGAGGC
* * * * * *
83078279 GTTGGTAGGTTCACAATAGGTGGTGATGGTGGTGGTAGAATCGATGGT
1 GTTGGTGGGTTCACAATTGGTGGTGATGGAGGTAGTAAAACCGATGGT
**
83078327 GTTGGTGGGTTCACAATTGGAAGTGATGGAGGTAGTAAAACCGATGGT
1 GTTGGTGGGTTCACAATTGGTGGTGATGGAGGTAGTAAAACCGATGGT
* *
83078375 GTTAGTGGGTTCACTATTGGTGG
1 GTTGGTGGGTTCACAATTGGTGG
83078398 ATTGGGGTAT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.22, C:0.08, G:0.39, T:0.31
Consensus pattern (48 bp):
GTTGGTGGGTTCACAATTGGTGGTGATGGAGGTAGTAAAACCGATGGT
Found at i:83078578 original size:23 final size:23
Alignment explanation
Indices: 83078536--83078584 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
83078526 TTTTTTATAT
83078536 TTTTTATAATTTTAAAA-TTTCTA
1 TTTTTAT-ATTTTAAAATTTTCTA
83078559 TTTTTAT-TTTTAAATGATTTTCTA
1 TTTTTATATTTTAAA--ATTTTCTA
83078583 TT
1 TT
83078585 ATTTTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
21 7 0.30
23 8 0.35
24 8 0.35
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTTATATTTTAAAATTTTCTA
Found at i:83078626 original size:12 final size:11
Alignment explanation
Indices: 83078611--83078652 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
83078601 ATTTTTTCAG
83078611 TTTTTTTAATAA
1 TTTTTTTAA-AA
83078623 TTTTTTTAAAA
1 TTTTTTTAAAA
83078634 TTATCTTTT-AAA
1 TT-T-TTTTAAAA
83078646 TTTTTTT
1 TTTTTTT
83078653 TGCAAAGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 4 0.14
11 5 0.18
12 15 0.54
13 4 0.14
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTTTTAAAA
Done.