Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 271 of 313
Found at i:82787140 original size:44 final size:44
Alignment explanation
Indices: 82787043--82787164 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 44
82787033 TGAGGAAGCA
* * *
82787043 AATCTTATCTCCCTAAGGTTGTAGTGGAGCAGATTGAAGTTGAT
1 AATCTTATCTCTCTGAGGTTGTAGTGGAGCAGATTGAAGTTAAT
* * *
82787087 AATCCTATCTCTCTGAGGTTGTAGTGGAGCGGGTT-AACG-TAAT
1 AATCTTATCTCTCTGAGGTTGTAGTGGAGCAGATTGAA-GTTAAT
* * * *
82787130 GGATCTTATCTCTTTGAAGTTGTAGTAGAGCAGAT
1 -AATCTTATCTCTCTGAGGTTGTAGTGGAGCAGAT
82787165 CGCATCAAGT
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
43 5 0.08
44 58 0.92
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.34
Consensus pattern (44 bp):
AATCTTATCTCTCTGAGGTTGTAGTGGAGCAGATTGAAGTTAAT
Found at i:82788965 original size:21 final size:20
Alignment explanation
Indices: 82788914--82788965 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
82788904 GCCCTTATAA
*
82788914 TATTATTTTATACACATATG
1 TATTATTTTATACAAATATG
*
82788934 TATATAATTTATATCAAATTATG
1 TAT-TATTTTATA-CAAA-TATG
82788957 T-TTATTTTA
1 TATTATTTTA
82788966 CATATAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 3 0.12
21 14 0.54
22 4 0.15
23 5 0.19
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.54
Consensus pattern (20 bp):
TATTATTTTATACAAATATG
Found at i:82794601 original size:14 final size:15
Alignment explanation
Indices: 82794582--82794622 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
82794572 AAACATCTTA
82794582 AATTAATTTT-AATT
1 AATTAATTTTCAATT
82794596 AATTAATTTTTCAATT
1 AATTAA-TTTTCAATT
*
82794612 AAATAATTTTC
1 AATTAATTTTC
82794623 TCAACTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 9 0.38
16 9 0.38
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
AATTAATTTTCAATT
Found at i:82796510 original size:20 final size:22
Alignment explanation
Indices: 82796482--82796532 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
82796472 GGGTCAACAA
*
82796482 GCCCATGTGG-AGG-GACACAC
1 GCCCGTGTGGAAGGAGACACAC
*
82796502 GCCCGTGTGGAAGGAGGCACAC
1 GCCCGTGTGGAAGGAGACACAC
*
82796524 GCTCGTGTG
1 GCCCGTGTG
82796533 ACCTAGGGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 9 0.35
21 3 0.12
22 14 0.54
ACGTcount: A:0.20, C:0.27, G:0.39, T:0.14
Consensus pattern (22 bp):
GCCCGTGTGGAAGGAGACACAC
Found at i:82802338 original size:189 final size:188
Alignment explanation
Indices: 82801851--82802422 Score: 1058
Period size: 188 Copynumber: 3.0 Consensus size: 188
82801841 ATTAATTAAA
82801851 TATTTTAAAATTAATACTATCGTATCTTTTACAATTGTATATGAAATTATTTAATATATAAATTA
1 TATTTTAAAATTAATACTATCGTATCTTTTACAATTGTATATGAAATTATTTAATATATAAATTA
82801916 AAATCAATCAGTCATGTACCCAAAAAAATTTAAAATTATTTTAAATAATAGTATTTTAATTTTTC
66 AAATCAATCAGTCATGTACCCAAAAAAATTTAAAATTATTTTAAATAATAGTATTTTAATTTTTC
82801981 TATTTAAAAAAAATATATTTTTCTATGTTTTTTATTTCAAATCATTTCTATGTGTCAT
131 TATTTAAAAAAAATATATTTTTCTATGTTTTTTATTTCAAATCATTTCTATGTGTCAT
82802039 TATTTTAAAATTAATACTATCGTATCTTTTACAATTGTATATGAAATTATTTAATATATAAATTA
1 TATTTTAAAATTAATACTATCGTATCTTTTACAATTGTATATGAAATTATTTAATATATAAATTA
82802104 AAATCAATCAGTCATGTACCCAAAAAAATTTAAAATTATTTTAAATAATAGTATTTTAATTTTTC
66 AAATCAATCAGTCATGTACCCAAAAAAATTTAAAATTATTTTAAATAATAGTATTTTAATTTTTC
82802169 TATTTAAAAAAAATATATTTTTCTATGTTTTTTATTTCAAATCATTTCTATGTGTCAT
131 TATTTAAAAAAAATATATTTTTCTATGTTTTTTATTTCAAATCATTTCTATGTGTCAT
82802227 TATTTTAAAATTAATACTATCGTATCTTTTACAATTGTATATGAAATTATTTAATATATAAATTA
1 TATTTTAAAATTAATACTATCGTATCTTTTACAATTGTATATGAAATTATTTAATATATAAATT-
*
82802292 AAAATCAATCAGTCATGTACCCAAAAAATTTTAAAATTATTTTAAATAATAGTATTTTAATTTTT
65 AAAATCAATCAGTCATGTACCCAAAAAAATTTAAAATTATTTTAAATAATAGTATTTTAATTTTT
** * * * *
82802357 CTATTT-TTAAAAA-ATATTTTTCTTTGTTTTTTTTTTCAAATTATTTCTACGTGTCAT
130 CTATTTAAAAAAAATATATTTTTCTATGTTTTTTATTTCAAATCATTTCTATGTGTCAT
82802414 TATTTTAAA
1 TATTTTAAA
82802423 TTTATTCACT
Statistics
Matches: 376, Mismatches: 7, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
187 49 0.13
188 257 0.68
189 70 0.19
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (188 bp):
TATTTTAAAATTAATACTATCGTATCTTTTACAATTGTATATGAAATTATTTAATATATAAATTA
AAATCAATCAGTCATGTACCCAAAAAAATTTAAAATTATTTTAAATAATAGTATTTTAATTTTTC
TATTTAAAAAAAATATATTTTTCTATGTTTTTTATTTCAAATCATTTCTATGTGTCAT
Found at i:82802589 original size:41 final size:40
Alignment explanation
Indices: 82802538--82802795 Score: 177
Period size: 41 Copynumber: 6.4 Consensus size: 40
82802528 GCGCTTTAAC
* *
82802538 AAAAATGCCGCTAAAAGCCTAAGCATTAGTGCCGCTTCTCT
1 AAAAAAGCCGCTAAAAGCCTAAGCATTAGCGCCGCTT-TCT
* *
82802579 AAAAAAGCCGCTAAAAGCC-AGAGCATTAGCGGCGC-TTAT
1 AAAAAAGCCGCTAAAAGCCTA-AGCATTAGCGCCGCTTTCT
* * * *
82802618 AAAAAACGCCGCT-AAAGCTTTGAGCATTAGCGACACTTTTCT
1 AAAAAA-GCCGCTAAAAGC-CTAAGCATTAGCGCCGC-TTTCT
** * * * **
82802660 AAAAGCGTCGCTAAAAGCCTGAGCACTAGCG--GCACT-T
1 AAAAAAGCCGCTAAAAGCCTAAGCATTAGCGCCGCTTTCT
* * *
82802697 AAAAAAGTGCCGCTAAAAGCCTAAGCATTAGTGTCGCTTTTT
1 AAAAAA--GCCGCTAAAAGCCTAAGCATTAGCGCCGCTTTCT
* * * *
82802739 CAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTTTTT
1 -AAAAAAGCCGCTAAAAGCCTAAGCATTAGCGCCGC-TTTCT
* *
82802781 ATAAACGCCGCTAAA
1 AAAAAAGCCGCTAAA
82802796 GCCCCCAAAA
Statistics
Matches: 173, Mismatches: 30, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
37 5 0.03
38 1 0.01
39 35 0.20
40 20 0.12
41 89 0.51
42 18 0.10
43 5 0.03
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (40 bp):
AAAAAAGCCGCTAAAAGCCTAAGCATTAGCGCCGCTTTCT
Found at i:82802661 original size:81 final size:80
Alignment explanation
Indices: 82802525--82802798 Score: 275
Period size: 81 Copynumber: 3.4 Consensus size: 80
82802515 AAATGTTTTT
* * * * * *
82802525 GCGGCGCTT-TAACAAAAATGCCGCTAAAAGCCTAAGCATTAGTGCCGCTTCTCTAAAAAAGCCG
1 GCGGCGCTTAT-A-AAAAACGCCGCT-AAAGCCTAAGCATTAGCGACACTTTTCTAAAAACGCCG
*
82802589 CTAAAAGCCAGAGCATTA
63 CTAAAAGCCTGAGCATTA
* * * *
82802607 GCGGCGCTTATAAAAAACGCCGCTAAAGCTTTGAGCATTAGCGACACTTTTCTAAAAGCGTCGCT
1 GCGGCGCTTATAAAAAACGCCGCTAAAGC-CTAAGCATTAGCGACACTTTTCTAAAAACGCCGCT
*
82802672 AAAAGCCTGAGCACTA
65 AAAAGCCTGAGCATTA
* ** * * *
82802688 GCGGCACTTA-AAAAAGTGCCGCTAAAAGCCTAAGCATTAGTGTCGCTTTT-TCAAAAACGCCGC
1 GCGGCGCTTATAAAAAACGCCGCT-AAAGCCTAAGCATTAGCGACACTTTTCT-AAAAACGCCGC
82802751 TAAAAGCCTGAGCATTA
64 TAAAAGCCTGAGCATTA
* * *
82802768 GCGGCGCTTTTTTATAAACGCCGCTAAAGCC
1 GCGGCGC-TTATAAAAAACGCCGCTAAAGCC
82802799 CCCAAAATGT
Statistics
Matches: 157, Mismatches: 29, Indels: 13
0.79 0.15 0.07
Matches are distributed among these distances:
79 1 0.01
80 63 0.40
81 73 0.46
82 19 0.12
83 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.22
Consensus pattern (80 bp):
GCGGCGCTTATAAAAAACGCCGCTAAAGCCTAAGCATTAGCGACACTTTTCTAAAAACGCCGCTA
AAAGCCTGAGCATTA
Found at i:82802778 original size:121 final size:118
Alignment explanation
Indices: 82802578--82802795 Score: 280
Period size: 121 Copynumber: 1.8 Consensus size: 118
82802568 GCCGCTTCTC
*
82802578 TAAAAAAGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTATAAAAAACGCCGCTAAAGCTTTGAGC
1 TAAAAAAGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTATAAAAAACGCCGCTAAAGCTCTGAGC
*
82802643 ATTAGCGACACTTTTCTA-AAAGCGTCGCTAAAAGCCTGAGCACTAGCGGCACT
66 ATTAGCGACACTTTTCTATAAA-CGCCGCTAAAAGCCTGAGCACTAGCGGCACT
* * * *
82802696 TAAAAAAGTGCCGCTAAAAGCCTA-AGCATTAGTGTCGCTTTTTCAAAAACGCCGCTAAAAGC-C
1 TAAAAAA--GCCGCTAAAAGCC-AGAGCATTAGCGGCGC-TTATAAAAAACGCCGCT-AAAGCTC
* * *
82802759 TGAGCATTAGCGGCGCTTTTTTATAAACGCCGCTAAA
61 TGAGCATTAGCGACACTTTTCTATAAACGCCGCTAAA
82802796 GCCCCCAAAA
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
118 7 0.08
120 25 0.29
121 45 0.53
122 8 0.09
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (118 bp):
TAAAAAAGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTATAAAAAACGCCGCTAAAGCTCTGAGC
ATTAGCGACACTTTTCTATAAACGCCGCTAAAAGCCTGAGCACTAGCGGCACT
Found at i:82803085 original size:23 final size:23
Alignment explanation
Indices: 82803059--82803130 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 23
82803049 ACTCTATTTT
82803059 AATTTAATAAACTATTCTCATCA
1 AATTTAATAAACTATTCTCATCA
*
82803082 AATTACTTAATAACTCTATT-T--T--
1 AA-T--TTAATAA-ACTATTCTCATCA
82803104 AATTTAATAAACTATTCTCATCA
1 AATTTAATAAACTATTCTCATCA
82803127 AATT
1 AATT
82803131 ACCAAAATAG
Statistics
Matches: 38, Mismatches: 2, Indels: 18
0.66 0.03 0.31
Matches are distributed among these distances:
18 5 0.13
19 8 0.21
21 2 0.05
22 2 0.05
23 6 0.16
24 2 0.05
26 8 0.21
27 5 0.13
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTTAATAAACTATTCTCATCA
Found at i:82803132 original size:45 final size:45
Alignment explanation
Indices: 82803044--82803132 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
82803034 TCTAATTAAG
82803044 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAATTACT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAATTACT
82803089 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAATTAC
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAATTAC
82803133 CAAAATAGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (45 bp):
TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAATTACT
Found at i:82803161 original size:15 final size:15
Alignment explanation
Indices: 82803138--82803187 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
82803128 ATTACCAAAA
*
82803138 TAGAGTTTATTAAAT
1 TAGAATTTATTAAAT
82803153 TAGAATTTATTAAAT
1 TAGAATTTATTAAAT
*
82803168 GAGAATAGTTTATTAAAT
1 TAG-A-A-TTTATTAAAT
82803186 TA
1 TA
82803188 AAATAGATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
15 16 0.55
16 1 0.03
17 1 0.03
18 11 0.38
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (15 bp):
TAGAATTTATTAAAT
Found at i:82803181 original size:18 final size:18
Alignment explanation
Indices: 82803141--82803201 Score: 74
Period size: 18 Copynumber: 3.5 Consensus size: 18
82803131 ACCAAAATAG
82803141 AGTTTATTAAATTAG-A-
1 AGTTTATTAAATTAGAAT
*
82803157 A-TTTATTAAATGAGAAT
1 AGTTTATTAAATTAGAAT
*
82803174 AGTTTATTAAATTAAAAT
1 AGTTTATTAAATTAGAAT
82803192 AGATTTATTA
1 AG-TTTATTA
82803202 CTTAATTAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
15 12 0.32
16 2 0.05
17 1 0.03
18 16 0.42
19 7 0.18
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (18 bp):
AGTTTATTAAATTAGAAT
Found at i:82803442 original size:27 final size:27
Alignment explanation
Indices: 82803404--82803473 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
82803394 CATTTTAGTC
82803404 CTTTGGCACCATTGGTGCCACCAATCT
1 CTTTGGCACCATTGGTGCCACCAATCT
* ***
82803431 CTTTGGCACCATTGATGCTGTCAATCT
1 CTTTGGCACCATTGGTGCCACCAATCT
* *
82803458 CTTTGGTACCTTTGGT
1 CTTTGGCACCATTGGT
82803474 ATATTTTGGT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.16, C:0.27, G:0.20, T:0.37
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCACCAATCT
Found at i:82803506 original size:26 final size:27
Alignment explanation
Indices: 82803474--82803536 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
82803464 TACCTTTGGT
*
82803474 ATATTTTGGTAAAT-AAAAAAATTATA
1 ATATTTTGATAAATAAAAAAAATTATA
82803500 ATATTTTGATAAATAAAAAAAATTATA
1 ATATTTTGATAAATAAAAAAAATTATA
82803527 ATATTTTGAT
1 ATATTTTGAT
82803537 TATTTTTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 13 0.37
27 22 0.63
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.41
Consensus pattern (27 bp):
ATATTTTGATAAATAAAAAAAATTATA
Found at i:82807620 original size:23 final size:24
Alignment explanation
Indices: 82807594--82807638 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
82807584 ATATCCTCAT
*
82807594 ATGGAGTGTAG-GGTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
*
82807617 ATGGTGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
82807639 GTATGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.20, C:0.02, G:0.51, T:0.27
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:82808998 original size:25 final size:26
Alignment explanation
Indices: 82808960--82809010 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
82808950 ATAATTTATT
82808960 TATATTTATAAAGTTATAACAAAAAA
1 TATATTTATAAAGTTATAACAAAAAA
* **
82808986 TATATTT-TCAAGTTATGGCAAAAAA
1 TATATTTATAAAGTTATAACAAAAAA
82809011 ATTATTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (26 bp):
TATATTTATAAAGTTATAACAAAAAA
Found at i:82811595 original size:13 final size:13
Alignment explanation
Indices: 82811577--82811601 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82811567 AATTTTTTTA
82811577 TTTTTAATTAATG
1 TTTTTAATTAATG
82811590 TTTTTAATTAAT
1 TTTTTAATTAAT
82811602 AAATATATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:82815947 original size:21 final size:21
Alignment explanation
Indices: 82815921--82815962 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
82815911 CTTTACACCA
*
82815921 CATTGTGGATAAACCACTCAT
1 CATTGTGGACAAACCACTCAT
*
82815942 CATTGTGGACGAACCACTCAT
1 CATTGTGGACAAACCACTCAT
82815963 GGACAAACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (21 bp):
CATTGTGGACAAACCACTCAT
Found at i:82818348 original size:28 final size:27
Alignment explanation
Indices: 82818305--82818365 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 27
82818295 CTATTTAGTG
*
82818305 ACAGTACAGTGTGGGCCTTAGCCAAAT
1 ACAGTACAGTGTGGGCCCTAGCCAAAT
* *
82818332 TCAGTATCAGTGTGGGCCCTAGCCCAAT
1 ACAGTA-CAGTGTGGGCCCTAGCCAAAT
82818360 ACAGTA
1 ACAGTA
82818366 ACATTACAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (27 bp):
ACAGTACAGTGTGGGCCCTAGCCAAAT
Found at i:82818772 original size:27 final size:27
Alignment explanation
Indices: 82818742--82818815 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 27
82818732 TAAAAATTAG
*
82818742 TTTACCCTATAGGGGTATTTCAGTCAT
1 TTTACCCTATAGGGGTATTTCAATCAT
*
82818769 TTTACCCTTTAGGGGTATTTCAATCAT
1 TTTACCCTATAGGGGTATTTCAATCAT
*
82818796 TTTACCTTAT-GGGGCTATTT
1 TTTACCCTATAGGGG-TATTT
82818816 TGGTAATTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.10
27 38 0.90
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.45
Consensus pattern (27 bp):
TTTACCCTATAGGGGTATTTCAATCAT
Found at i:82824578 original size:27 final size:26
Alignment explanation
Indices: 82824548--82824881 Score: 227
Period size: 27 Copynumber: 12.4 Consensus size: 26
82824538 GGTATAAAAA
82824548 TCATTTTACCCTTCGGGGCTATTTCGG
1 TCATTTTACCCTTCGGGG-TATTTCGG
* **
82824575 TCATTTTACCCTTCAAGGGTATTTCAA
1 TCATTTTACCCTTC-GGGGTATTTCGG
* * *
82824602 TTATTTTAGCCTTCGAGGGTATTTTGG
1 TCATTTTACCCTTCG-GGGTATTTCGG
* ** * *
82824629 TTATTTTACTATTTAGAGGTATTTCGG
1 TCATTTTAC-CCTTCGGGGTATTTCGG
* *
82824656 TCATTTTACCCTTTAGGGGTATTTTGG
1 TCATTTTACCC-TTCGGGGTATTTCGG
* ** *
82824683 TTATTTTACCCTTTTAGGGTATTTTGG
1 TCATTTTACCC-TTCGGGGTATTTCGG
**
82824710 TCATTTTACCCTTCGAGGGTATTTTAG
1 TCATTTTACCCTTCG-GGGTATTTCGG
* **
82824737 TCATTTTACCCTTTGAGGGTATTTCAA
1 TCATTTTACCCTTCG-GGGTATTTCGG
* * * *
82824764 TTATTTTATCATTCGGGGGTATTTTGG
1 TCATTTTACCCTTC-GGGGTATTTCGG
* * * *
82824791 TTATTTTACCTTTCAAGGGTATTTCGA
1 TCATTTTACCCTTC-GGGGTATTTCGG
* *
82824818 TCATTTTATCTTTCGGGGGTATTTCGG
1 TCATTTTACCCTTC-GGGGTATTTCGG
* * * * *
82824845 TCATTTTATCTTATAGGGCTATTTTGG
1 TCATTTTACCCT-TCGGGGTATTTCGG
82824872 TCATTTTACC
1 TCATTTTACC
82824882 TATTTTGAGG
Statistics
Matches: 248, Mismatches: 52, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
26 2 0.01
27 238 0.96
28 8 0.03
ACGTcount: A:0.18, C:0.15, G:0.19, T:0.48
Consensus pattern (26 bp):
TCATTTTACCCTTCGGGGTATTTCGG
Found at i:82824676 original size:81 final size:82
Alignment explanation
Indices: 82824567--82824891 Score: 306
Period size: 81 Copynumber: 4.0 Consensus size: 82
82824557 CCTTCGGGGC
* * *
82824567 TATTTCGGTCATTTTACCCTTCAAGGGTATTTCAATTATTTTAGCCTTCGAGGGTATTTTGGTTA
1 TATTTCGGTCATTTTACCCTTTAGGGGTATTTCAATTATTTTA-CCTTCGAGGGTATTTTGGTCA
82824632 TTTTA-CTATTTAGA-GG
65 TTTTACCTATTTAGAGGG
*** **
82824648 TATTTCGGTCATTTTACCCTTTAGGGGTATTTTGGTTATTTTACCCTTTTAGGGTATTTTGGTCA
1 TATTTCGGTCATTTTACCCTTTAGGGGTATTTCAATTATTTTA-CCTTCGAGGGTATTTTGGTCA
* *
82824713 TTTTACC--CTTCGAGGG
65 TTTTACCTATTTAGAGGG
** * * *
82824729 TATTTTAGTCATTTTACCCTTT-GAGGGTATTTCAATTATTTTATCATTCGGGGGTATTTTGGTT
1 TATTTCGGTCATTTTACCCTTTAG-GGGTATTTCAATTATTTTA-CCTTCGAGGGTATTTTGGTC
*
82824793 ATTTTACCT-TTCA-AGGG
64 ATTTTACCTATTTAGAGGG
* * * ** * * **
82824810 TATTTCGATCATTTTA-TCTTTCGGGGGTATTTCGGTCATTTTATCTTATAGGGCTATTTTGGTC
1 TATTTCGGTCATTTTACCCTTT-AGGGGTATTTCAATTATTTTACCTTCGAGGG-TATTTTGGTC
*
82824874 ATTTTACCTATTTTGAGG
64 ATTTTACCTATTTAGAGG
82824892 TCTCGGTGTA
Statistics
Matches: 195, Mismatches: 40, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
80 14 0.07
81 173 0.89
82 5 0.03
83 3 0.02
ACGTcount: A:0.18, C:0.14, G:0.19, T:0.49
Consensus pattern (82 bp):
TATTTCGGTCATTTTACCCTTTAGGGGTATTTCAATTATTTTACCTTCGAGGGTATTTTGGTCAT
TTTACCTATTTAGAGGG
Found at i:82824868 original size:54 final size:53
Alignment explanation
Indices: 82824547--82824881 Score: 323
Period size: 54 Copynumber: 6.2 Consensus size: 53
82824537 GGGTATAAAA
* * * *
82824547 ATCATTTTACCCTTCGGGGCTATTTCGGTCATTTTACCCTTCAAGGGTATTTCA
1 ATCATTTTACCCTTCGGGGGTATTTTGGTCATTTTACCCTT-TAGGGTATTTCG
* * * * **
82824601 ATTATTTTAGCCTTCGAGGGTATTTTGGTTATTTTACTATTTAGAGGTATTTCG
1 ATCATTTTACCCTTCGGGGGTATTTTGGTCATTTTACCCTTTAG-GGTATTTCG
* ** * *
82824655 GTCATTTTACCCTTTAGGGGTATTTTGGTTATTTTACCCTTTTAGGGTATTTTG
1 ATCATTTTACCCTTCGGGGGTATTTTGGTCATTTTACCC-TTTAGGGTATTTCG
* * * *
82824709 GTCATTTTACCCTTCGAGGGTATTTTAGTCATTTTACCCTTTGAGGGTATTTCA
1 ATCATTTTACCCTTCGGGGGTATTTTGGTCATTTTACCCTTT-AGGGTATTTCG
* * * *
82824763 ATTATTTTATCATTCGGGGGTATTTTGGTTATTTTA-CCTTTCAAGGGTATTTCG
1 ATCATTTTACCCTTCGGGGGTATTTTGGTCATTTTACCCTTT--AGGGTATTTCG
* * * * *
82824817 ATCATTTTATCTTTCGGGGGTATTTCGGTCATTTTA-TCTTATAGGGCTATTTTG
1 ATCATTTTACCCTTCGGGGGTATTTTGGTCATTTTACCCTT-TAGGG-TATTTCG
*
82824871 GTCATTTTACC
1 ATCATTTTACC
82824882 TATTTTGAGG
Statistics
Matches: 232, Mismatches: 43, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
53 14 0.06
54 212 0.91
55 6 0.03
ACGTcount: A:0.18, C:0.15, G:0.19, T:0.48
Consensus pattern (53 bp):
ATCATTTTACCCTTCGGGGGTATTTTGGTCATTTTACCCTTTAGGGTATTTCG
Found at i:82837302 original size:3 final size:3
Alignment explanation
Indices: 82837294--82837336 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
82837284 AAAATATAGA
82837294 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
82837337 GATACACTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:82841889 original size:70 final size:70
Alignment explanation
Indices: 82841735--82842045 Score: 335
Period size: 70 Copynumber: 4.5 Consensus size: 70
82841725 AACAGGTCCT
* * * *
82841735 ATTCCAAACTTTGCACCATCATCATGG-TGAGAAGAAATTTTTCAA-TTCAACATGGCGAGAGGA
1 ATTCTAAACTTTGCACCATCAACATGGCAG-GAAGAAACTTTTCAACTTCAACATGGCGAGAGGA
* * *
82841798 GGGTCT
65 GAGCCC
* * * *
82841804 ATT-TCGAACTATGCACCATCAACATGGCAGGAAGAAAATTTTCAACTTCAACATGGTGAGAGGA
1 ATTCT-AAACTTTGCACCATCAACATGGCAGGAAGAAACTTTTCAACTTCAACATGGCGAGAGGA
*
82841868 GAACCC
65 GAGCCC
* * *
82841874 ATTCTAAACTTTGCACCATCAACATGGCAAGAAG-AACTTTTACAACTTCAACATGGTGAAAGGA
1 ATTCTAAACTTTGCACCATCAACATGGCAGGAAGAAACTTTT-CAACTTCAACATGGCGAGAGGA
82841938 GAGCCC
65 GAGCCC
* * * * *
82841944 ATTCCAAACTTTGCACCATCAAAATGGCGGGAA-AAACCTTTGCAACTTTAACATGGCGAGAGGA
1 ATTCTAAACTTTGCACCATCAACATGGCAGGAAGAAA-CTTTTCAACTTCAACATGGCGAGAGGA
*
82842008 GGGCCC
65 GAGCCC
* * *
82842014 ATTCTGAACTTTGCAACATTAACATGGCAGGA
1 ATTCTAAACTTTGCACCATCAACATGGCAGGA
82842046 GAAGGGCCCA
Statistics
Matches: 203, Mismatches: 32, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
69 42 0.21
70 156 0.77
71 5 0.02
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (70 bp):
ATTCTAAACTTTGCACCATCAACATGGCAGGAAGAAACTTTTCAACTTCAACATGGCGAGAGGAG
AGCCC
Found at i:82842027 original size:41 final size:42
Alignment explanation
Indices: 82841981--82842083 Score: 165
Period size: 41 Copynumber: 2.5 Consensus size: 42
82841971 CGGGAAAAAC
* *
82841981 CTTTGCAACTTTAACATGGCGA-GAGGAGGGCCCATTCTGAA
1 CTTTGCAACATTAACATGGCGAGGAGAAGGGCCCATTCTGAA
82842022 CTTTGCAACATTAACATGGC-AGGAGAAGGGCCCATTCTGAA
1 CTTTGCAACATTAACATGGCGAGGAGAAGGGCCCATTCTGAA
*
82842063 CTTTGCAACATCAACATGGCG
1 CTTTGCAACATTAACATGGCG
82842084 GAAACAACCT
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
40 1 0.02
41 56 0.98
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.23
Consensus pattern (42 bp):
CTTTGCAACATTAACATGGCGAGGAGAAGGGCCCATTCTGAA
Found at i:82843167 original size:57 final size:59
Alignment explanation
Indices: 82843090--82843199 Score: 136
Period size: 57 Copynumber: 1.9 Consensus size: 59
82843080 GTAAAAACGG
* * * * *
82843090 AGAAATGGGAAACATTTGGAATTTATTATGGTTTTCTCGAAAAT-AAAATGAATAATGA
1 AGAAATGGGAAACATTTGGAAATGAATATGGTTTTATCCAAAATGAAAATGAATAATGA
*
82843148 AGAAAT-GGAATA-ATTTGGAAATGAATGTGGTTTTATCCAAAATGAAAATGAA
1 AGAAATGGGAA-ACATTTGGAAATGAATATGGTTTTATCCAAAATGAAAATGAA
82843200 AAAGAAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
57 29 0.66
58 15 0.34
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.31
Consensus pattern (59 bp):
AGAAATGGGAAACATTTGGAAATGAATATGGTTTTATCCAAAATGAAAATGAATAATGA
Found at i:82844702 original size:227 final size:227
Alignment explanation
Indices: 82844307--82844759 Score: 852
Period size: 227 Copynumber: 2.0 Consensus size: 227
82844297 CCTTGAATTG
*
82844307 TGTCGAGTGTGGGATCGAGCAATATGAACCAAACACAAAACTAGAAATGATTTATTACTTTTAAT
1 TGTCGAGTGTAGGATCGAGCAATATGAACCAAACACAAAACTAGAAATGATTTATTACTTTTAAT
* * * *
82844372 AGATAAGTACTTTTCTCAAATAGAAATCGATAGAAATTGAAATTCCCAAAATATATAATTTATTC
66 AGATAAATACTTCTCTCAAATAGAAACCGATAGAAATTGAAATTCCCAAAAAATATAATTTATTC
82844437 TTAGAAATTAAATTTCCACTACTTTCTTACAGAATAACAATATATGAAACTTCTGTGTAAAAACT
131 TTAGAAATTAAATTTCCACTACTTTCTTACAGAATAACAATATATGAAACTTCTGTGTAAAAACT
82844502 TATGTTAATAGCTATACCAGTACCATCTATTA
196 TATGTTAATAGCTATACCAGTACCATCTATTA
*
82844534 TGTCGAGTGTAGGATTGAGCAATATGAACCAAACACAAAACTAGAAATGATTTATTACTTTTAAT
1 TGTCGAGTGTAGGATCGAGCAATATGAACCAAACACAAAACTAGAAATGATTTATTACTTTTAAT
82844599 AGATAAATACTTCTCTCAAATAGAAACCGATAGAAATTGAAATTCCCAAAAAATATAATTTATTC
66 AGATAAATACTTCTCTCAAATAGAAACCGATAGAAATTGAAATTCCCAAAAAATATAATTTATTC
82844664 TTAGAAATTAAATTTCCACTACTTTCTTACAGAATAACAATATATGAAACTTCTGTGTAAAAACT
131 TTAGAAATTAAATTTCCACTACTTTCTTACAGAATAACAATATATGAAACTTCTGTGTAAAAACT
82844729 TATGTTAATAGCTATACCAGTACCATCTATT
196 TATGTTAATAGCTATACCAGTACCATCTATT
82844760 TAAAAGGAGA
Statistics
Matches: 220, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
227 220 1.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (227 bp):
TGTCGAGTGTAGGATCGAGCAATATGAACCAAACACAAAACTAGAAATGATTTATTACTTTTAAT
AGATAAATACTTCTCTCAAATAGAAACCGATAGAAATTGAAATTCCCAAAAAATATAATTTATTC
TTAGAAATTAAATTTCCACTACTTTCTTACAGAATAACAATATATGAAACTTCTGTGTAAAAACT
TATGTTAATAGCTATACCAGTACCATCTATTA
Found at i:82844883 original size:41 final size:42
Alignment explanation
Indices: 82844837--82844927 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 42
82844827 TGGGAAGAAC
* * *
82844837 CTTTGCAACT-TTAACATGGTGAGAGGAGGGCCCATTCTGAA
1 CTTTGCAACTATTAACATGGCGAGAGAAGCGCCCATTCTGAA
*
82844878 CTTTGCAA-TATTAACATGGCGGGAGAAGCGCCCATTCTGAA
1 CTTTGCAACTATTAACATGGCGAGAGAAGCGCCCATTCTGAA
82844919 CTTTGCAAC
1 CTTTGCAAC
82844928 AACAACATGG
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
40 1 0.02
41 43 0.98
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.26
Consensus pattern (42 bp):
CTTTGCAACTATTAACATGGCGAGAGAAGCGCCCATTCTGAA
Found at i:82846314 original size:59 final size:58
Alignment explanation
Indices: 82846242--82846357 Score: 137
Period size: 58 Copynumber: 2.0 Consensus size: 58
82846232 AAATGGTAAA
* ** *
82846242 AATGGAGAAATGGAAAACATTT-GAAATTTAT-TAAAGTTTTCTCCAAAATGAAAATGAAT
1 AATGAAGAAATGGAAAA-ATTTGGAAATGAATGT--AGTTTTATCCAAAATGAAAATGAAT
* *
82846301 AATGAAGAAATGGAATAATTTGGAAATGAATGTGGTTTTATCCAAAATGAAAATGAA
1 AATGAAGAAATGGAAAAATTTGGAAATGAATGTAGTTTTATCCAAAATGAAAATGAA
82846358 AAAGAAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
58 26 0.53
59 22 0.45
60 1 0.02
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.29
Consensus pattern (58 bp):
AATGAAGAAATGGAAAAATTTGGAAATGAATGTAGTTTTATCCAAAATGAAAATGAAT
Found at i:82847826 original size:230 final size:230
Alignment explanation
Indices: 82847417--82848555 Score: 2068
Period size: 230 Copynumber: 5.0 Consensus size: 230
82847407 TTGTATCATT
* * * * * * *
82847417 CTCGGCTTTCAACTAAACGGCCTTCTTTACTATCCTCTTACCTTGAATTGTGTCGAGTGTGGGAT
1 CTCGGGTTTCAACTGAACGACCTTCTTTACTATCATCGTACCTTGAATTGTGTTGAGTGTGGAAT
* *
82847482 CGAGCAATATGAACCAAACAAAAAACTAGAAATGATTTATTACTTTTAATAGATAAGTAATTCTC
66 TGAGCAATATGAACCAAACACAAAACTAGAAATGATTTATTACTTTTAATAGATAAGTAATTCTC
82847547 TCAAATAGAAACCGATAGAAATTGAAATTCCCAAAATATATAATTTATTCTTTGAAATTAAATTT
131 TCAAATAGAAACCGATAGAAATTGAAATTCCCAAAATATATAATTTATTCTTTGAAATTAAATTT
82847612 CCACTACTTTCTTGCAGAATAACAATATATGAAAC
196 CCACTACTTTCTTGCAGAATAACAATATATGAAAC
82847647 CTCGGGTTTCAACTGAACGACCTTCTTTACTATCATCGTACCTTGAATTGTGTTGAGTGTGGAAT
1 CTCGGGTTTCAACTGAACGACCTTCTTTACTATCATCGTACCTTGAATTGTGTTGAGTGTGGAAT
82847712 TGAGCAATATGAACCAAACACAAAACTAGAAATGATTTATTACTTTTAATAGATAAGTAATTCTC
66 TGAGCAATATGAACCAAACACAAAACTAGAAATGATTTATTACTTTTAATAGATAAGTAATTCTC
82847777 TCAAATAGAAACCGATAGAAATTGAAATTCCCAAAATATATAATTTATTCTTTGAAATTAAATTT
131 TCAAATAGAAACCGATAGAAATTGAAATTCCCAAAATATATAATTTATTCTTTGAAATTAAATTT
82847842 CCACTACTTTCTTGCAGAATAACAATATATGAAAC
196 CCACTACTTTCTTGCAGAATAACAATATATGAAAC
82847877 CTCGGGTTTCAACTGAACGACCTTCTTTACTATCATCGTACCTTGAATTGTGTTGAGTGTGGAAT
1 CTCGGGTTTCAACTGAACGACCTTCTTTACTATCATCGTACCTTGAATTGTGTTGAGTGTGGAAT
82847942 TGAGCAATATGAACCAAACACAAAACTAGAAATGATTTATTACTTTTAATAGATAAGTAATTCTC
66 TGAGCAATATGAACCAAACACAAAACTAGAAATGATTTATTACTTTTAATAGATAAGTAATTCTC
82848007 TCAAATAGAAACCGATAGAAATTGAAATTCCCAAAATATATAATTTATTCTTTGAAATTAAATTT
131 TCAAATAGAAACCGATAGAAATTGAAATTCCCAAAATATATAATTTATTCTTTGAAATTAAATTT
82848072 CCACTACTTTCTTGCAGAATAACAATATATGAAAC
196 CCACTACTTTCTTGCAGAATAACAATATATGAAAC
82848107 CTCGGGTTTCAACTGAACGACCTTCTTTACTATCATCGTACCTTGAATTGTGTTGAGTGTGGAAT
1 CTCGGGTTTCAACTGAACGACCTTCTTTACTATCATCGTACCTTGAATTGTGTTGAGTGTGGAAT
82848172 TGAGCAATATGAACCAAACACAAAACTAGAAATGATTTATTACTTTTAATAGATAAGTAATTCTC
66 TGAGCAATATGAACCAAACACAAAACTAGAAATGATTTATTACTTTTAATAGATAAGTAATTCTC
82848237 TCAAATAGAAACCGATAGAAATTGAAATTCCCAAAATATATAATTTATTCTTTGAAATTAAATTT
131 TCAAATAGAAACCGATAGAAATTGAAATTCCCAAAATATATAATTTATTCTTTGAAATTAAATTT
82848302 CCACTACTTTCTTGCAGAATAACAATATATGAAAC
196 CCACTACTTTCTTGCAGAATAACAATATATGAAAC
82848337 CTCGGGTTTCAACTGAACGACCTTCTTTACTATCATCGTACCTTGAATTGTGTTGAGTGTGGAAT
1 CTCGGGTTTCAACTGAACGACCTTCTTTACTATCATCGTACCTTGAATTGTGTTGAGTGTGGAAT
82848402 TGAGCAATATGAACCAAACACAAAACTAGAAATGATTTATTACTTTTAATAGATAAGTAATTCTC
66 TGAGCAATATGAACCAAACACAAAACTAGAAATGATTTATTACTTTTAATAGATAAGTAATTCTC
* *
82848467 TC-------AA---ATAG-AATTGAAATTCCCAAAAAATATAATTTATTCTTAGAAATTAAATTT
131 TCAAATAGAAACCGATAGAAATTGAAATTCCCAAAATATATAATTTATTCTTTGAAATTAAATTT
* *
82848521 CCACTACTTTATTACTA-AATAACAATATATGAAAC
196 CCACTACTTTCTTGC-AGAATAACAATATATGAAAC
82848556 TTTTATGTAA
Statistics
Matches: 895, Mismatches: 13, Indels: 13
0.97 0.01 0.01
Matches are distributed among these distances:
219 75 0.08
220 5 0.01
223 2 0.00
230 813 0.91
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (230 bp):
CTCGGGTTTCAACTGAACGACCTTCTTTACTATCATCGTACCTTGAATTGTGTTGAGTGTGGAAT
TGAGCAATATGAACCAAACACAAAACTAGAAATGATTTATTACTTTTAATAGATAAGTAATTCTC
TCAAATAGAAACCGATAGAAATTGAAATTCCCAAAATATATAATTTATTCTTTGAAATTAAATTT
CCACTACTTTCTTGCAGAATAACAATATATGAAAC
Found at i:82850486 original size:16 final size:18
Alignment explanation
Indices: 82850460--82850493 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
82850450 TCAAATTAAC
82850460 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
82850477 TAAA-TAATTTTCTCAAT
1 TAAATTAATTTTCTCAAT
82850494 CCAATTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:82859165 original size:40 final size:40
Alignment explanation
Indices: 82859106--82859521 Score: 523
Period size: 40 Copynumber: 10.4 Consensus size: 40
82859096 ATACTCTCTA
* * * *
82859106 TTTGGCATGTTTTGGTTGGATTAGCTCTTATGAACTTCTG
1 TTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTG
* * * *
82859146 TTTGGCGTGTTTCGATTGGACCAGCTTTTTTGAGCTTCTG
1 TTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTG
* * * *
82859186 TTTGGCGTGTTTTGGTTGGATTAGCTCTTATGACCTTTTG
1 TTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTG
* *
82859226 TTTGGCGTGTTTTGGTTGGATTAGCTCTTATGAGCTTCTG
1 TTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTG
*
82859266 TTTGGCGTGTTTCGGTTGGATCAGCTCTTATAAGCTTCTG
1 TTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTG
** *
82859306 TTTGGTATGATTT-GGTTGGATCAGCTCTTATAAGCTTCTG
1 TTTGGCGTG-TTTCGGTTGGATCAGCTCTTATGAGCTTCTG
* *
82859346 TTTGGCGTGTTTCGGTTGGATCAGCCCTTATGAGCTTATG
1 TTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTG
* * * *
82859386 TTTGGTGTGTTTCGATTGGATCAGCTTTTATGAG-TATTTG
1 TTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCT-TCTG
82859426 TTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTG
1 TTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTG
* * * *
82859466 TTTGGTGTATTTCGGTTGGATTAGCTCTTGTGAGCTTCTG
1 TTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTG
* *
82859506 TCTGGTGTG-TTCGGTT
1 TTTGGCGTGTTTCGGTT
82859522 AATCTGACGA
Statistics
Matches: 329, Mismatches: 43, Indels: 9
0.86 0.11 0.02
Matches are distributed among these distances:
39 11 0.03
40 314 0.95
41 4 0.01
ACGTcount: A:0.12, C:0.14, G:0.28, T:0.46
Consensus pattern (40 bp):
TTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTG
Found at i:82869702 original size:30 final size:30
Alignment explanation
Indices: 82869666--82869728 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
82869656 ACTTAACAAG
82869666 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
* *
82869696 CAAATGTCTTTAAAATAATAATAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
82869726 CAA
1 CAA
82869729 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:82881693 original size:28 final size:27
Alignment explanation
Indices: 82881662--82881746 Score: 66
Period size: 29 Copynumber: 3.0 Consensus size: 27
82881652 ATAGATATTT
82881662 ATTTCTTTCAAATATTTTAACATCTTTA
1 ATTT-TTTCAAATATTTTAACATCTTTA
** * *
82881690 ATTTATTTCAGCTTATTTCAACATCGTTA
1 ATTT-TTTCA-AATATTTTAACATCTTTA
*
82881719 ATTTATTCAAATTTATTTTAA-AT-TTTA
1 ATTTTTTCAAA--TATTTTAACATCTTTA
82881746 A
1 A
82881747 ATTTATATAT
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
27 4 0.09
28 15 0.34
29 25 0.57
ACGTcount: A:0.33, C:0.12, G:0.02, T:0.53
Consensus pattern (27 bp):
ATTTTTTCAAATATTTTAACATCTTTA
Found at i:82885737 original size:6 final size:6
Alignment explanation
Indices: 82885726--82885818 Score: 118
Period size: 6 Copynumber: 15.7 Consensus size: 6
82885716 CAATTCAAAA
82885726 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA--
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
** * * *
82885772 AAGAAGA AAAATC AAAATC AAAATC AAAGTC AAAATG AAAATG AAAA
1 AA-AATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
82885819 AAGAGAGAAG
Statistics
Matches: 79, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
4 2 0.03
5 2 0.03
6 73 0.92
7 2 0.03
ACGTcount: A:0.69, C:0.12, G:0.05, T:0.14
Consensus pattern (6 bp):
AAAATC
Found at i:82885788 original size:47 final size:48
Alignment explanation
Indices: 82885732--82885827 Score: 158
Period size: 47 Copynumber: 2.0 Consensus size: 48
82885722 AAAAAAAATC
82885732 AAAATCAAAATCAAAATCAAAATCAAAATCAAAATCAAAAAAGA-AGA
1 AAAATCAAAATCAAAATCAAAATCAAAATCAAAATCAAAAAAGAGAGA
* * *
82885779 AAAATCAAAATCAAAATCAAAGTCAAAATGAAAATGAAAAAAGAGAGA
1 AAAATCAAAATCAAAATCAAAATCAAAATCAAAATCAAAAAAGAGAGA
82885827 A
1 A
82885828 GAAAAAGAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
47 41 0.91
48 4 0.09
ACGTcount: A:0.69, C:0.10, G:0.08, T:0.12
Consensus pattern (48 bp):
AAAATCAAAATCAAAATCAAAATCAAAATCAAAATCAAAAAAGAGAGA
Found at i:82885849 original size:20 final size:19
Alignment explanation
Indices: 82885803--82885852 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
82885793 AATCAAAGTC
* *
82885803 AAAATGAAAATGAAAAAAG
1 AAAAAGAAAAAGAAAAAAG
*
82885822 AGAGAAGAAAAAGAAAAAAGG
1 A-AAAAGAAAAAGAAAAAA-G
82885843 AAAAAGAAAA
1 AAAAAGAAAA
82885853 GGAGAGGCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 1 0.04
20 22 0.88
21 2 0.08
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (19 bp):
AAAAAGAAAAAGAAAAAAG
Found at i:82888181 original size:128 final size:128
Alignment explanation
Indices: 82888011--82888693 Score: 1066
Period size: 128 Copynumber: 5.3 Consensus size: 128
82888001 GCTCCCTGAC
* * *
82888011 CAGCAGTGGAATAGGTTGGGAAATTACAGATCTTATCTCCCTAAGCAATAGCGGAGCAGATCAAA
1 CAGCAGTGGAATA-GTTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAA
* * * *
82888076 GACGACGAATCTTATCTTCAAGTGTAAGGAAGCATATTTAAGCCACAAGTCCTATATCCCTGGT
65 GACGGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGT
* *
82888140 CAGCAGTAGAATAGTTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGGTCAAA-
1 CAGCAGTGGAATAGTTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAG
* *
82888204 AGCGGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCTACAAGTCTTATATCCCTGGT
66 A-CGGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGT
*
82888268 CAGTAGTGGAATAGTTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAA
1 CAGCAGTGGAATAGTTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATC-AAA
*
82888333 G-CGGCAAATCTTATCTTCGAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGT
65 GACGGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGT
*
82888396 CAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAA
1 CAGCAGTGGAATAGTTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATC-AAA
*
82888461 G-CGGCAAATCTTATCTTCGAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGT
65 GACGGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGT
* * *
82888524 TAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCAAAG
1 CAGCAGTGGAATAGTTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAG
* ** * *
82888589 ATGGTGAATCTTATCTTCAAGTGTAAGGAAGCATATTTAAGCCACAAGTCCTATATCCCTGGT
66 ACGGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGT
* * *
82888652 CAGCAGTGGAATAGGTTGGGAAATTACAGATCCTATCTCCCT
1 CAGCAGTGGAATA-GTTTGGAAATTACAGATCTTGTCTCCCT
82888694 GAAGTTGTAG
Statistics
Matches: 517, Mismatches: 32, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
127 5 0.01
128 473 0.91
129 39 0.08
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (128 bp):
CAGCAGTGGAATAGTTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAG
ACGGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGT
Found at i:82888832 original size:87 final size:87
Alignment explanation
Indices: 82888725--82889092 Score: 727
Period size: 87 Copynumber: 4.2 Consensus size: 87
82888715 AAAGTAATAG
82888725 ATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGGGATTACAGT
1 ATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGGGATTACAGT
82888790 GGAATAGACCGAAGAATTTCAA
66 GGAATAGACCGAAGAATTTCAA
82888812 ATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGGGATTACAGT
1 ATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGGGATTACAGT
82888877 GGAATAGACCGAAGAATTTCAA
66 GGAATAGACCGAAGAATTTCAA
82888899 ATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGGGATTACAGT
1 ATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGGGATTACAGT
82888964 GGAATAGACCGAAGAATTTCAA
66 GGAATAGACCGAAGAATTTCAA
82888986 ATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGGGATTACAGT
1 ATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGGGATTACAGT
82889051 GGAATAGACCGAAGAATTTCAA
66 GGAATAGACCGAAGAATTTCAA
*
82889073 ATCTTATCTCTCTGAGGTTA
1 ATCTTATCTCTCTGAAGTTA
82889093 CGGTGGAGCA
Statistics
Matches: 280, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 280 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (87 bp):
ATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGGGATTACAGT
GGAATAGACCGAAGAATTTCAA
Found at i:82889099 original size:46 final size:46
Alignment explanation
Indices: 82888767--82889099 Score: 236
Period size: 46 Copynumber: 7.6 Consensus size: 46
82888757 TCGCATCAGG
82888767 TCTTATCTCCCTGGGATTACAGTGGAATAGACCGAAGAATTTCAAA
1 TCTTATCTCCCTGGGATTACAGTGGAATAGACCGAAGAATTTCAAA
* * * * * * * **
82888813 TCTTATCTCTCT-GAAGTTATAGTAGAGTAGATC---GCA--TCAGG
1 TCTTATCTCCCTGGGA-TTACAGTGGAATAGACCGAAGAATTTCAAA
82888854 TCTTATCTCCCTGGGATTACAGTGGAATAGACCGAAGAATTTCAAA
1 TCTTATCTCCCTGGGATTACAGTGGAATAGACCGAAGAATTTCAAA
* * * * * * * **
82888900 TCTTATCTCTCT-GAAGTTATAGTAGAGTAGATC---GCA--TCAGG
1 TCTTATCTCCCTGGGA-TTACAGTGGAATAGACCGAAGAATTTCAAA
82888941 TCTTATCTCCCTGGGATTACAGTGGAATAGACCGAAGAATTTCAAA
1 TCTTATCTCCCTGGGATTACAGTGGAATAGACCGAAGAATTTCAAA
* * * * * * * **
82888987 TCTTATCTCTCT-GAAGTTATAGTAGAGTAGATC---GCA--TCAGG
1 TCTTATCTCCCTGGGA-TTACAGTGGAATAGACCGAAGAATTTCAAA
82889028 TCTTATCTCCCTGGGATTACAGTGGAATAGACCGAAGAATTTCAAA
1 TCTTATCTCCCTGGGATTACAGTGGAATAGACCGAAGAATTTCAAA
* *
82889074 TCTTATCTCTCTGAGG-TTACGGTGGA
1 TCTTATCTCCCTG-GGATTACAGTGGA
82889100 GCAGATTGAG
Statistics
Matches: 209, Mismatches: 56, Indels: 44
0.68 0.18 0.14
Matches are distributed among these distances:
41 81 0.39
42 6 0.03
43 6 0.03
44 6 0.03
45 6 0.03
46 102 0.49
47 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (46 bp):
TCTTATCTCCCTGGGATTACAGTGGAATAGACCGAAGAATTTCAAA
Found at i:82889132 original size:44 final size:44
Alignment explanation
Indices: 82889071--82889376 Score: 194
Period size: 44 Copynumber: 7.0 Consensus size: 44
82889061 GAAGAATTTC
* * * *
82889071 AAATCTTATCTCTCTGAGGTTACGGTGGAGCAGATTGAGGCCAG
1 AAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAG
* *
82889115 AAATCTTATGTCCCTGAGATTACAGTAGAGCAGATTGAAGCCAG
1 AAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAG
* * * * ***
82889159 TAATCCTATTTCCCTGAGATTACAGTGGAGCGGATT-AAAATA-
1 AAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAG
* * * * * * *
82889201 AAGGATCTTATCTCTCTAAAATTACAGTAGAGTAG-TTCGCA-TCAG
1 AA--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-GAAGCCAG
* * ** ** * *
82889246 --GTCTTATCTCCCTGGGATTACAGTGGAATAGACCGAAG-AATTTC
1 AAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCA---G
* *
82889290 AAATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAGGCCAG
1 AAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAG
* * * * *
82889334 AAATCTTATCTTCCTGAGATTGCAGTGGAACATATTAAAGCCA
1 AAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCA
82889377 CAACTGCGAA
Statistics
Matches: 194, Mismatches: 55, Indels: 26
0.71 0.20 0.09
Matches are distributed among these distances:
41 27 0.14
42 1 0.01
43 5 0.03
44 129 0.66
45 1 0.01
46 30 0.15
47 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAG
Found at i:82889421 original size:50 final size:50
Alignment explanation
Indices: 82889352--82889604 Score: 194
Period size: 50 Copynumber: 5.0 Consensus size: 50
82889342 TCTTCCTGAG
* * * *
82889352 ATTGCAGTGGAACATATTAAAGCCACAACTGCGAATCTCGCTTCCCCGAC
1 ATTGCAGTGGAAAAGATTAAAGCCACAACTGCGAATCTTGCTTCCCAGAC
* * * * *
82889402 ATTGCAGTTGAAAAGATTAAAGCTACAA-TAGCGAATCTTACTTCCTAGGC
1 ATTGCAGTGGAAAAGATTAAAGCCACAACT-GCGAATCTTGCTTCCCAGAC
*
82889452 GA-TGCAGTGGAACAGATTAAAGCCACAAC-GACGAATCTTGCTTCCCTA-AC
1 -ATTGCAGTGGAAAAGATTAAAGCCACAACTG-CGAATCTTGCTTCCC-AGAC
* ** * * ** *
82889502 ATTGTAGTTAAAAAGATTAAAGCCACAACAGCGAATCTTACTTTCCTTGGC
1 ATTGCAGTGGAAAAGATTAAAGCCACAACTGCGAATCTTGC-TTCCCAGAC
** * * *
82889553 GGTGCAGT-GAAATAGATTGAAGCTACAA-TGGCGAATCTTGCTTCCCCGAC
1 ATTGCAGTGGAAA-AGATTAAAGCCACAACT-GCGAATCTTGCTTCCCAGAC
82889603 AT
1 AT
82889605 CACAGTTAAG
Statistics
Matches: 156, Mismatches: 36, Indels: 22
0.73 0.17 0.10
Matches are distributed among these distances:
49 3 0.02
50 117 0.75
51 36 0.23
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (50 bp):
ATTGCAGTGGAAAAGATTAAAGCCACAACTGCGAATCTTGCTTCCCAGAC
Found at i:82889464 original size:100 final size:101
Alignment explanation
Indices: 82889354--82889624 Score: 341
Period size: 100 Copynumber: 2.7 Consensus size: 101
82889344 TTCCTGAGAT
* * *
82889354 TGCAGTGGAACATATTAAAGCCACAACTGCGAATCTCGCTTCCCCGACATTGCAGTTGAAAAGAT
1 TGCAGTGGAACAGATTAAAGCCACAACTGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
* *
82889419 TAAAGCTACAATAGCGAATCTTAC-TTCCTAGGCGA
66 TAAAGCCACAACAGCGAATCTTACTTTCCTAGGCGA
** *
82889454 TGCAGTGGAACAGATTAAAGCCACAAC-GACGAATCTTGCTTCCCTAACATTGTAGTTAAAAAGA
1 TGCAGTGGAACAGATTAAAGCCACAACTG-CGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGA
* *
82889518 TTAAAGCCACAACAGCGAATCTTACTTTCCTTGGCGG
65 TTAAAGCCACAACAGCGAATCTTACTTTCCTAGGCGA
* * * * ** **
82889555 TGCAGTGAAATAGATTGAAGCTACAA-TGGCGAATCTTGCTTCCCCGACATCACAGTTAAGCAGA
1 TGCAGTGGAACAGATTAAAGCCACAACT-GCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGA
82889619 TTAAAG
65 TTAAAG
82889625 TTACGAGTTA
Statistics
Matches: 146, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
99 1 0.01
100 79 0.54
101 65 0.45
102 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.24
Consensus pattern (101 bp):
TGCAGTGGAACAGATTAAAGCCACAACTGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
TAAAGCCACAACAGCGAATCTTACTTTCCTAGGCGA
Found at i:82891407 original size:28 final size:28
Alignment explanation
Indices: 82891376--82891461 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 28
82891366 TATTTCTTTC
82891376 TTTCAAATATTTTAACATCTTTAATTTA
1 TTTCAAATATTTTAACATCTTTAATTTA
** * *
82891404 TTTCAGCTTATTTCAACATCGTTAATTTA
1 TTTCA-AATATTTTAACATCTTTAATTTA
82891433 -TTCAAATTTATTTTAA-AT-TTTAAATTTA
1 TTTCAAA--TATTTTAACATCTTT-AATTTA
82891461 T
1 T
82891462 ATATTATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
27 2 0.04
28 17 0.38
29 26 0.58
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.53
Consensus pattern (28 bp):
TTTCAAATATTTTAACATCTTTAATTTA
Found at i:82894595 original size:22 final size:22
Alignment explanation
Indices: 82894543--82894609 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
82894533 CGAAGTGTTG
* *
82894543 AACAAAGAGCATCAAAGTGCTA
1 AACAAAGAGTACCAAAGTGCTA
* *
82894565 AATAGAGAGTACCAAAGTGCTA
1 AACAAAGAGTACCAAAGTGCTA
*
82894587 AACAAAGAGTACCGAAGTGCTA
1 AACAAAGAGTACCAAAGTGCTA
82894609 A
1 A
82894610 GAAAACAACA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.48, C:0.16, G:0.21, T:0.15
Consensus pattern (22 bp):
AACAAAGAGTACCAAAGTGCTA
Found at i:82895651 original size:26 final size:26
Alignment explanation
Indices: 82895594--82895651 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
82895584 GTCTAAAAAA
*** *
82895594 ACTATTCCATGTATGAGTTTGCAATG
1 ACTATTCCATGTATGAGTCCACAAGG
* *
82895620 AATATTCCATGTATGAGTCCATAAGG
1 ACTATTCCATGTATGAGTCCACAAGG
82895646 ACTATT
1 ACTATT
82895652 TCAAGCATAA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (26 bp):
ACTATTCCATGTATGAGTCCACAAGG
Found at i:82898965 original size:12 final size:12
Alignment explanation
Indices: 82898929--82899012 Score: 107
Period size: 12 Copynumber: 6.9 Consensus size: 12
82898919 GCAAATGAAT
*
82898929 CATTTCTCATTTT
1 CATTTC-CATTTC
82898942 CATTTCTC-TTTC
1 CATTTC-CATTTC
*
82898954 TATTTCCATTTC
1 CATTTCCATTTC
*
82898966 TATTTCCATTTC
1 CATTTCCATTTC
82898978 CATTTCCATTTC
1 CATTTCCATTTC
*
82898990 AATTTCCATTTC
1 CATTTCCATTTC
82899002 CATTTCCATTT
1 CATTTCCATTT
82899013 TGAGAAAACC
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
11 1 0.02
12 56 0.86
13 8 0.12
ACGTcount: A:0.17, C:0.27, G:0.00, T:0.56
Consensus pattern (12 bp):
CATTTCCATTTC
Found at i:82899002 original size:18 final size:18
Alignment explanation
Indices: 82898929--82899012 Score: 107
Period size: 18 Copynumber: 4.6 Consensus size: 18
82898919 GCAAATGAAT
*
82898929 CATTTCTCATTTTCATTTC
1 CATTTC-CATTTCCATTTC
*
82898948 TC-TTTCTATTTCCATTTC
1 -CATTTCCATTTCCATTTC
*
82898966 TATTTCCATTTCCATTTC
1 CATTTCCATTTCCATTTC
*
82898984 CATTTCAATTTCCATTTC
1 CATTTCCATTTCCATTTC
82899002 CATTTCCATTT
1 CATTTCCATTT
82899013 TGAGAAAACC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
18 51 0.91
19 4 0.07
20 1 0.02
ACGTcount: A:0.17, C:0.27, G:0.00, T:0.56
Consensus pattern (18 bp):
CATTTCCATTTCCATTTC
Found at i:82902993 original size:2 final size:2
Alignment explanation
Indices: 82902988--82903012 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
82902978 GTCTTTCCTT
82902988 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
82903013 TCTGTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:82905361 original size:11 final size:11
Alignment explanation
Indices: 82905345--82905369 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
82905335 CGCCCCATCG
82905345 TCCTCCCCCAC
1 TCCTCCCCCAC
82905356 TCCTCCCCCAC
1 TCCTCCCCCAC
82905367 TCC
1 TCC
82905370 CGTCCTTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.72, G:0.00, T:0.20
Consensus pattern (11 bp):
TCCTCCCCCAC
Found at i:82906575 original size:29 final size:29
Alignment explanation
Indices: 82906543--82906607 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
82906533 ACCAAAAAAA
82906543 GCCATTTTTTTCAA-AATTTACCGAAATGG
1 GCCATTTTTTT-AATAATTTACCGAAATGG
* * * *
82906572 GCCATATTTTTAATTATTTACTGGAATGG
1 GCCATTTTTTTAATAATTTACCGAAATGG
82906601 GCCATTT
1 GCCATTT
82906608 CCGCGAAATC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 2 0.07
29 28 0.93
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (29 bp):
GCCATTTTTTTAATAATTTACCGAAATGG
Found at i:82907293 original size:7 final size:7
Alignment explanation
Indices: 82907281--82907310 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
82907271 GTGGCAAACC
82907281 ACCCTAA
1 ACCCTAA
82907288 ACCCTAA
1 ACCCTAA
*
82907295 ACTCTAA
1 ACCCTAA
82907302 ACCCTAA
1 ACCCTAA
82907309 AC
1 AC
82907311 TGCCTTTGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (7 bp):
ACCCTAA
Found at i:82910405 original size:257 final size:257
Alignment explanation
Indices: 82909948--82910460 Score: 918
Period size: 257 Copynumber: 2.0 Consensus size: 257
82909938 CTTAGGGTCC
*
82909948 ATAGTCTGGAATTTCAGTTCTCTTACTATGCAGTTTGTATACAACAATCACTATTGTACTTTACA
1 ATAGTCTAGAATTTCAGTTCTCTTACTATGCAGTTTGTATACAACAATCACTATTGTACTTTACA
*
82910013 ATGAATACTTCTAGGAGCTATTCAGATTATGATAGGTACTCAAAGAACTAAGTTGGTGCATCTGT
66 ATGAATACTTCTAGGAGCTATTCAGATTATGATAGGGACTCAAAGAACTAAGTTGGTGCATCTGT
*
82910078 CTGATCAGAGTACTTGGCCATTGCCCATCACCCTGAGCAAGCACACCCCTCAATATAAGTCAGAT
131 CTGATCAGAGTACTTGGCCATTGCCCATCACCCTGAGCAAGCACACCCCTCAACATAAGTCAGAT
82910143 CTGGTTGATAGTAGGGATTTGCAATTGGTATTGGCAGAATTTGAAGATGTTTTCCAATCTCA
196 CTGGTTGATAGTAGGGATTTGCAATTGGTATTGGCAGAATTTGAAGATGTTTTCCAATCTCA
**
82910205 ATAGTCTAGAATTTCAGTTCTCTTACTATGCAGTTTGTATACAATGATCACTATTGTACTTTACA
1 ATAGTCTAGAATTTCAGTTCTCTTACTATGCAGTTTGTATACAACAATCACTATTGTACTTTACA
* *
82910270 ATGAATACTTTTAGGAGCTATTCAGATTATGATAGGGACTCAAAGCACTAAGTTGGTGCATCTGT
66 ATGAATACTTCTAGGAGCTATTCAGATTATGATAGGGACTCAAAGAACTAAGTTGGTGCATCTGT
* * * * *
82910335 CTGATCAGAGTACTTGGCCATTGCTCATCACCCTGAGCAAGCACACCCTTCTACATATGTCAGGT
131 CTGATCAGAGTACTTGGCCATTGCCCATCACCCTGAGCAAGCACACCCCTCAACATAAGTCAGAT
82910400 CTGGTTGATAGTAGGGATTTGCAATTGGTATTGGCAGAATTTGAAGATGTTTTCCAATCTC
196 CTGGTTGATAGTAGGGATTTGCAATTGGTATTGGCAGAATTTGAAGATGTTTTCCAATCTC
82910461 CAAAGGAACT
Statistics
Matches: 244, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
257 244 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (257 bp):
ATAGTCTAGAATTTCAGTTCTCTTACTATGCAGTTTGTATACAACAATCACTATTGTACTTTACA
ATGAATACTTCTAGGAGCTATTCAGATTATGATAGGGACTCAAAGAACTAAGTTGGTGCATCTGT
CTGATCAGAGTACTTGGCCATTGCCCATCACCCTGAGCAAGCACACCCCTCAACATAAGTCAGAT
CTGGTTGATAGTAGGGATTTGCAATTGGTATTGGCAGAATTTGAAGATGTTTTCCAATCTCA
Found at i:82914649 original size:15 final size:14
Alignment explanation
Indices: 82914629--82914667 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
82914619 GCCTCTTGCT
82914629 AAAAGAAGAAGAGAA
1 AAAAGAA-AAGAGAA
*
82914644 AAAAGAATAGAGAA
1 AAAAGAAAAGAGAA
*
82914658 AAAAGGAAAG
1 AAAAGAAAAG
82914668 GAAGTGGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.03
Consensus pattern (14 bp):
AAAAGAAAAGAGAA
Found at i:82915348 original size:23 final size:23
Alignment explanation
Indices: 82915318--82915365 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
82915308 AATGAGAAGG
82915318 AAGGGATTCGAACACTGGTCATC
1 AAGGGATTCGAACACTGGTCATC
*
82915341 AAGGGATTCGAACATTGGTCATC
1 AAGGGATTCGAACACTGGTCATC
82915364 AA
1 AA
82915366 AGACAACTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (23 bp):
AAGGGATTCGAACACTGGTCATC
Found at i:82917079 original size:27 final size:27
Alignment explanation
Indices: 82917020--82917091 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
82917010 CTCAAACTGA
*
82917020 TATAAAATGATTGTTATGCCCCTACGT
1 TATAAAATGACTGTTATGCCCCTACGT
** *
82917047 GGTAAAATGACTGTTATGCCCCTATGT
1 TATAAAATGACTGTTATGCCCCTACGT
*
82917074 TATAAAATAACTG-TATGC
1 TATAAAATGACTGTTATGC
82917092 TTTATGTTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 5 0.13
27 33 0.87
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (27 bp):
TATAAAATGACTGTTATGCCCCTACGT
Found at i:82923491 original size:27 final size:28
Alignment explanation
Indices: 82923461--82923517 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
82923451 TTTTTTTTTG
**
82923461 TAATTTTGACACTTTTTTAAATAA-TTT
1 TAATTTTGACACTTTTAAAAATAACTTT
**
82923488 TAATTTTTTCACTTTTAAAAATAACTTT
1 TAATTTTGACACTTTTAAAAATAACTTT
82923516 TA
1 TA
82923518 TTATTTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (28 bp):
TAATTTTGACACTTTTAAAAATAACTTT
Found at i:82924727 original size:18 final size:18
Alignment explanation
Indices: 82924704--82924739 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
82924694 TTCGTTATTT
82924704 TTAATTAAAAAAAATTAA
1 TTAATTAAAAAAAATTAA
*
82924722 TTAATTAAATAAAATTAA
1 TTAATTAAAAAAAATTAA
82924740 AAGCAATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TTAATTAAAAAAAATTAA
Found at i:82925010 original size:31 final size:32
Alignment explanation
Indices: 82924964--82925023 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
82924954 AAAAGTTTAA
*
82924964 ATACAAACTTAAGAAAAA-GTGTCAAATTGAG
1 ATACAAACTTAAGAAAAACATGTCAAATTGAG
82924995 ATACTAAA-TTAAGAAAAACATGTCAAATT
1 ATAC-AAACTTAAGAAAAACATGTCAAATT
82925024 CAAGTACCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.53, C:0.10, G:0.12, T:0.25
Consensus pattern (32 bp):
ATACAAACTTAAGAAAAACATGTCAAATTGAG
Found at i:82935856 original size:19 final size:19
Alignment explanation
Indices: 82935834--82935877 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
82935824 CCCCCCCCAG
82935834 AAAACCTAACCCCAAAAAAA
1 AAAACCTAA-CCCAAAAAAA
*
82935854 AAACCCTAACCCAAAAAAA
1 AAAACCTAACCCAAAAAAA
82935873 AAAAC
1 AAAAC
82935878 TAAGAAACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.66, C:0.30, G:0.00, T:0.05
Consensus pattern (19 bp):
AAAACCTAACCCAAAAAAA
Found at i:82935863 original size:20 final size:20
Alignment explanation
Indices: 82935834--82935877 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
82935824 CCCCCCCCAG
*
82935834 AAAA-CCTAACCCCAAAAAA
1 AAAACCCTAACCCAAAAAAA
82935853 AAAACCCTAACCCAAAAAAA
1 AAAACCCTAACCCAAAAAAA
82935873 AAAAC
1 AAAAC
82935878 TAAGAAACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.66, C:0.30, G:0.00, T:0.05
Consensus pattern (20 bp):
AAAACCCTAACCCAAAAAAA
Found at i:82936909 original size:15 final size:17
Alignment explanation
Indices: 82936881--82936912 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
82936871 TTGTATATAT
82936881 TATATTTATATTATGTA
1 TATATTTATATTATGTA
82936898 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
82936913 CGTTTCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:82938723 original size:12 final size:12
Alignment explanation
Indices: 82938706--82938741 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
82938696 ATTCATTTGA
82938706 CATTCATGCATT
1 CATTCATGCATT
*
82938718 CATTCATGCCTT
1 CATTCATGCATT
*
82938730 CATTCATACATT
1 CATTCATGCATT
82938742 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:82947206 original size:72 final size:72
Alignment explanation
Indices: 82947018--82948077 Score: 1544
Period size: 72 Copynumber: 14.5 Consensus size: 72
82947008 TCTGTTTAAA
* *
82947018 AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
*
82947083 TGTTGTC
66 TGTTTTC
* *
82947090 AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTGGGACACGCTGAGGTAATTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
*
82947155 TTTGTTTTC
64 TCTGTTTTC
*
82947164 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
82947229 TGTTTTC
66 TGTTTTC
* ** ** * * *
82947236 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
82947301 TGTCTTTC
66 TGT-TTTC
** *
82947309 AAAAAAATCAACTCATACGGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
* *
82947374 TTTGTTGTTAA
64 TCTGTT-TT-C
** * *
82947385 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
82947450 TGTCTTTC
66 TGT-TTTC
** *
82947458 AAAAAAATCAACTCATACGGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
*
82947523 TTTGTTTTC
64 TCTGTTTTC
* * ** ** * * *
82947532 AAAATTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
82947597 TGTTTTTC
66 TG-TTTTC
*
82947605 AAAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCA
1 -----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCA
*
82947670 ATTTCTGTTTTT
61 ATTTCTGTTTTC
82947682 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
*
82947747 TGTTTTT
66 TGTTTTC
82947754 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
*
82947819 TGTTTTT
66 TGTTTTC
82947826 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
*
82947891 TGTTTTT
66 TGTTTTC
82947898 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
*
82947963 TGTTTTT
66 TGTTTTC
**
82947970 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCTAGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
82948035 TGTTTTC
66 TGTTTTC
* *
82948042 AAAAAATCAACTCATACTGCGAAAGGTGAGTTGAGC
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
82948078 TTCAGATCAC
Statistics
Matches: 910, Mismatches: 61, Indels: 31
0.91 0.06 0.03
Matches are distributed among these distances:
72 541 0.59
73 42 0.05
74 137 0.15
75 127 0.14
77 4 0.00
78 59 0.06
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
TGTTTTC
Found at i:82963212 original size:41 final size:41
Alignment explanation
Indices: 82963167--82963268 Score: 149
Period size: 41 Copynumber: 2.6 Consensus size: 41
82963157 GTGCAGAAAC
* *
82963167 AGTAGCCATGCTTAACATGTATTCAATTCAACAATAGTAGT
1 AGTAGACATGCTTAACATGTACTCAATTCAACAATAGTAGT
82963208 AGTAGACATGCTTAACATGTACTCAATTCAAC---AGTAGT
1 AGTAGACATGCTTAACATGTACTCAATTCAACAATAGTAGT
82963246 AGTAGACATG-TTCAACATGTACT
1 AGTAGACATGCTT-AACATGTACT
82963269 TAGTAGAGTG
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
37 2 0.03
38 26 0.45
41 30 0.52
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (41 bp):
AGTAGACATGCTTAACATGTACTCAATTCAACAATAGTAGT
Found at i:82973568 original size:5 final size:5
Alignment explanation
Indices: 82973558--82973595 Score: 67
Period size: 5 Copynumber: 7.4 Consensus size: 5
82973548 AAAACTCATA
82973558 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAATAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AA
82973596 CTAGTCATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:82976697 original size:19 final size:19
Alignment explanation
Indices: 82976670--82976706 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
82976660 CATAAGTAAA
*
82976670 AGTCCAAATAAATAACATG
1 AGTCCAAATAAACAACATG
*
82976689 AGTCGAAATAAACAACAT
1 AGTCCAAATAAACAACAT
82976707 TATAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.16, G:0.11, T:0.19
Consensus pattern (19 bp):
AGTCCAAATAAACAACATG
Found at i:82976793 original size:92 final size:93
Alignment explanation
Indices: 82976688--82976874 Score: 340
Period size: 95 Copynumber: 2.0 Consensus size: 93
82976678 TAAATAACAT
82976688 GAGTCGAAATAAACAACATTATAATAATAATAAAACAAAAC-AGCAAAAGTCCAAAATACAATAG
1 GAGTCGAAATAAACAACATTATAATAATAATAAAACAAAACAAGCAAAAGTCCAAAATACAATAG
82976752 AAACCTACACCAAAAGAACACAACAAAA
66 AAACCTACACCAAAAGAACACAACAAAA
82976780 GAGTCGAAATAAACAACATTATAATAATAATAAAACAAAACATAAGCAAAAGTCCAAAATACAAT
1 GAGTCGAAATAAACAACATTATAATAATAATAAAACAAAAC--AAGCAAAAGTCCAAAATACAAT
*
82976845 AGAAACCTACACCAAAAGAACATAACAAAA
64 AGAAACCTACACCAAAAGAACACAACAAAA
82976875 TTCCAATTAA
Statistics
Matches: 91, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
92 41 0.45
95 50 0.55
ACGTcount: A:0.61, C:0.18, G:0.07, T:0.14
Consensus pattern (93 bp):
GAGTCGAAATAAACAACATTATAATAATAATAAAACAAAACAAGCAAAAGTCCAAAATACAATAG
AAACCTACACCAAAAGAACACAACAAAA
Found at i:82977942 original size:29 final size:30
Alignment explanation
Indices: 82977910--82977969 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
82977900 TAATTTTTAA
*
82977910 ATGTAGTGTTTTTTAAAAAT-AAAAAATAT
1 ATGTAGTGTATTTTAAAAATAAAAAAATAT
*
82977939 ATGTGGTGTATTTTAAAAATAAAAAAATAT
1 ATGTAGTGTATTTTAAAAATAAAAAAATAT
82977969 A
1 A
82977970 GTTTATATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 18 0.64
30 10 0.36
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (30 bp):
ATGTAGTGTATTTTAAAAATAAAAAAATAT
Found at i:82978087 original size:7 final size:7
Alignment explanation
Indices: 82978075--82978099 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
82978065 CGATTCGAAT
82978075 AATTCGA
1 AATTCGA
82978082 AATTCGA
1 AATTCGA
82978089 AATTCGA
1 AATTCGA
82978096 AATT
1 AATT
82978100 TTTTTCGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (7 bp):
AATTCGA
Found at i:82997139 original size:18 final size:19
Alignment explanation
Indices: 82997116--82997158 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
82997106 ATGTACTAAC
*
82997116 TAATTT-TTTGGACCGCAT
1 TAATTTGTTTGGACCACAT
*
82997134 TAATTTGTTTGGACCATAT
1 TAATTTGTTTGGACCACAT
82997153 TAATTT
1 TAATTT
82997159 AAGATCTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.49
Consensus pattern (19 bp):
TAATTTGTTTGGACCACAT
Found at i:83001553 original size:21 final size:21
Alignment explanation
Indices: 83001523--83001572 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
83001513 ATTGCTATTA
* *
83001523 CTAATACTCACCCTACAACAC
1 CTAATTCTCAACCTACAACAC
83001544 CTAATTCTCAACCTACAACAC
1 CTAATTCTCAACCTACAACAC
*
83001565 CTACTTCT
1 CTAATTCT
83001573 TAGTTTAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.40, G:0.00, T:0.26
Consensus pattern (21 bp):
CTAATTCTCAACCTACAACAC
Found at i:83008107 original size:28 final size:28
Alignment explanation
Indices: 83008056--83008111 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
83008046 ATAACTTTTT
*
83008056 TTTATTTATCAAAATATTATAAAAAAAA
1 TTTATTTATCAAAATATTACAAAAAAAA
83008084 TTTATTTATCAAAATA-TACCAAAAAAAA
1 TTTATTTATCAAAATATTA-CAAAAAAAA
83008112 AACGGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 2 0.08
28 24 0.92
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (28 bp):
TTTATTTATCAAAATATTACAAAAAAAA
Found at i:83008183 original size:27 final size:27
Alignment explanation
Indices: 83008144--83008220 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 27
83008134 GTCTGATTAG
* * *
83008144 GCCAATCACATTGGAGGCACCAAAAGT
1 GCCAATGAGATTGGCGGCACCAAAAGT
**
83008171 GCCAATGAGATTGGCGGCACCAATGGT
1 GCCAATGAGATTGGCGGCACCAAAAGT
* *
83008198 GCCAAAGAGATTGGCGGTACCAA
1 GCCAATGAGATTGGCGGCACCAA
83008221 TGGTGCTAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.32, C:0.23, G:0.29, T:0.16
Consensus pattern (27 bp):
GCCAATGAGATTGGCGGCACCAAAAGT
Found at i:83008221 original size:27 final size:27
Alignment explanation
Indices: 83008153--83008231 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
83008143 GGCCAATCAC
* ** *
83008153 ATTGGAGGCACCAAAAGTGCCAATGAG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
83008180 ATTGGCGGCACCAATGGTGCCAAAGAG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
* *
83008207 ATTGGCGGTACCAATGGTGCTAAAG
1 ATTGGCGGCACCAATGGTGCCAAAG
83008232 GACTAAAATG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.32, C:0.19, G:0.32, T:0.18
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAGAG
Found at i:83008340 original size:27 final size:27
Alignment explanation
Indices: 83008310--83008376 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
83008300 TGAATTGCTG
83008310 CCAATGGTGCCAATGAGATTGGCGACA
1 CCAATGGTGCCAATGAGATTGGCGACA
* *
83008337 CCAATGGTGCCAATTAGATTGGCGGCA
1 CCAATGGTGCCAATGAGATTGGCGACA
83008364 CCAATGGTGCCAA
1 CCAATGGTGCCAA
83008377 AGGACTAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.19
Consensus pattern (27 bp):
CCAATGGTGCCAATGAGATTGGCGACA
Found at i:83008436 original size:147 final size:147
Alignment explanation
Indices: 83008163--83008604 Score: 785
Period size: 147 Copynumber: 3.0 Consensus size: 147
83008153 ATTGGAGGCA
* * *
83008163 CCAAAAGTGCCAATGAGATTGGCGGCACCAATGGTGCCAAAGAGATTGGCGGTACCAATGGTGCT
1 CCAAAGGTGCCAATGAGATTGGCGGCACCAATGGTGCCAAAGAGATTGGCGGCACCAATGGTGCC
*
83008228 AAAGGACTAAAATGTAACTTTCTGCAGTTTTAAGGACCTGACATGTAAATTTACCATTTTAAATT
66 AAAGGACTAAAATGTAACTTTCTGCAGTTTTAAGGACCTGACATGCAAATTTACCATTTTAAATT
83008293 TTGAAAGTGAATTGCTG
131 TTGAAAGTGAATTGCTG
* * **
83008310 CCAATGGTGCCAATGAGATTGGCGACACCAATGGTGCCAATTAGATTGGCGGCACCAATGGTGCC
1 CCAAAGGTGCCAATGAGATTGGCGGCACCAATGGTGCCAAAGAGATTGGCGGCACCAATGGTGCC
* *
83008375 AAAGGACTAAAATGTAACTTTCTACAGTTTTAAGGATCTGACATGCAAATTTACCATTTTAAATT
66 AAAGGACTAAAATGTAACTTTCTGCAGTTTTAAGGACCTGACATGCAAATTTACCATTTTAAATT
83008440 TTGAAAGTGAATTGCTG
131 TTGAAAGTGAATTGCTG
83008457 CCAAAGGTGCCAATGAGATTGGCGGCACCAATGGTGCCAAAGAGATTGGCGGCACCAATGGTGCC
1 CCAAAGGTGCCAATGAGATTGGCGGCACCAATGGTGCCAAAGAGATTGGCGGCACCAATGGTGCC
*
83008522 AAAGGACTAAAATGTAACTTTCTGCAGTTTTAAGGACCTGACATGCAAATTTACCATTTTGAATT
66 AAAGGACTAAAATGTAACTTTCTGCAGTTTTAAGGACCTGACATGCAAATTTACCATTTTAAATT
83008587 TTGAAAGTGAATTGCTG
131 TTGAAAGTGAATTGCTG
83008604 C
1 C
83008605 TGCTAGCACA
Statistics
Matches: 278, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
147 278 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (147 bp):
CCAAAGGTGCCAATGAGATTGGCGGCACCAATGGTGCCAAAGAGATTGGCGGCACCAATGGTGCC
AAAGGACTAAAATGTAACTTTCTGCAGTTTTAAGGACCTGACATGCAAATTTACCATTTTAAATT
TTGAAAGTGAATTGCTG
Found at i:83008487 original size:27 final size:27
Alignment explanation
Indices: 83008457--83008525 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
83008447 TGAATTGCTG
* *
83008457 CCAAAGGTGCCAATGAGATTGGCGGCA
1 CCAATGGTGCCAAAGAGATTGGCGGCA
83008484 CCAATGGTGCCAAAGAGATTGGCGGCA
1 CCAATGGTGCCAAAGAGATTGGCGGCA
83008511 CCAATGGTGCCAAAG
1 CCAATGGTGCCAAAG
83008526 GACTAAAATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.30, C:0.23, G:0.32, T:0.14
Consensus pattern (27 bp):
CCAATGGTGCCAAAGAGATTGGCGGCA
Found at i:83010734 original size:44 final size:44
Alignment explanation
Indices: 83010686--83011293 Score: 274
Period size: 44 Copynumber: 13.8 Consensus size: 44
83010676 AAAATCTACC
* * *
83010686 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
* * *
83010730 ATCTTCAATCTATTCCACTACTGCCCAGGGAGAT-AGA-AT-TA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
* * * * * * **
83010771 CTAGCTTCAATGTACTCCACTGTAAC--CTCAGGGAGGTAAAACCCGCC
1 --ATCTTCAATCTACTCCAC--T-ACTGCTCAGGGAGATAAGATCTGTA
* * * *
83010818 ATCCTT-GATCTGCTCCACTACTGTTTAGGGAGATAAGATCTGTA
1 AT-CTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
* * ** * *
83010862 ATCTTCAATATATTCCACTGTTGCCCAGGGAGAT-AGA-AT-TA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
* * * * * **
83010903 CTGGCTTCAATGTATTCCACTGTAAC--CTCAGGGAGGTAAAATCTGCC
1 AT--CTTCAATCTACTCCAC--T-ACTGCTCAGGGAGATAAGATCTGTA
* * * *
83010950 ATCTTCGATCTGCTCCACTACTGCTTAGTGAGATAAGATCTGTA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
* *
83010994 ATCTTCAATCTATTCCACTGCTGCTCAGGGAGAT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAG-A-T-CTGTA
* * * * **
83011038 A-CTTCAATGTACTCCACTGTAAC--CTCAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCAC--T-ACTGCTCAGGGAGATAAGATCTGTA
* * *
83011082 ATCCTT-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
1 AT-CTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
* * * *
83011126 ATCTTCAATCTATTCCACTGCTGCTTAGGGAGAT-AGA-AT-TA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
* * * * * ****
83011167 CTGGCTTCAATGTACTCTACTGTAAC--CTCAGGGAGGTAAAATCCACC
1 AT--CTTCAATCTACTCCAC--T-ACTGCTCAGGGAGATAAGATCTGTA
* *
83011214 ATCTTTAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
*
83011258 ATCTTCAATCTATTCCACTACTG-TCTAGGGAGATAA
1 ATCTTCAATCTACTCCACTACTGCTC-AGGGAGATAA
83011294 AATTACTGGC
Statistics
Matches: 406, Mismatches: 111, Indels: 94
0.66 0.18 0.15
Matches are distributed among these distances:
41 8 0.02
42 13 0.03
43 80 0.20
44 233 0.57
45 56 0.14
46 14 0.03
47 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
Found at i:83010734 original size:132 final size:132
Alignment explanation
Indices: 83010562--83011359 Score: 1258
Period size: 132 Copynumber: 6.0 Consensus size: 132
83010552 CTTTCTTCCG
* * * * *
83010562 TCTGCTCCACTACTGTTTTGGGAGATAAGATCTGTAATCTTCAATATATTCCACTGTTTCCCAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGG
* * **
83010627 GATATAGAATTACTGGCTTCAATGTATTCCACTGTAACCTCAGGGAGGTAAAATCTACCATCTTC
66 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTC
83010692 GA
131 GA
*
83010694 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACTGCCCAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGG
* *
83010759 GAGATAGAATTACTAGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAACCCGCCATCCTT
66 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCAT-CTT
83010824 -GA
130 CGA
* * *
83010826 TCTGCTCCACTACTGTTTAGGGAGATAAGATCTGTAATCTTCAATATATTCCACTGTTGCCCAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGG
* *
83010891 GAGATAGAATTACTGGCTTCAATGTATTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTC
66 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTC
83010956 GA
131 GA
* *
83010958 TCTGCTCCACTACTGCTTAGTGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCTCAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGG
*
83011023 GAGATAGAATTACTGACTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCCTT
66 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCAT-CTT
83011088 -GA
130 CGA
**
83011090 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGG
* * *
83011155 GAGATAGAATTACTGGCTTCAATGTACTCTACTGTAACCTCAGGGAGGTAAAATCCACCATCTTT
66 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTC
*
83011220 AA
131 GA
* * * *
83011222 TCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACTGTCTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGG
* ***
83011287 GAGATAAAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTTTCCATCTTC
66 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTC
83011352 GA
131 GA
83011354 TCTGCT
1 TCTGCT
83011360 TCGCTGTCAA
Statistics
Matches: 616, Mismatches: 46, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
131 6 0.01
132 604 0.98
133 6 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (132 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGG
GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTC
GA
Found at i:83011332 original size:44 final size:42
Alignment explanation
Indices: 83010996--83011341 Score: 116
Period size: 44 Copynumber: 7.9 Consensus size: 42
83010986 GATCTGTAAT
* * * *
83010996 CTTCAATCTATTCCACTGCTGCTCAGGGAGATAGAATTACTGA
1 CTTCAATCTACTCCACTACT-CTCAGGGAGATAAAATTACTGG
* * * *
83011039 CTTCAATGTACTCCACTGTAAC-CTCAGGGAGGTAAAA-T-CCGC
1 CTTCAATCTACTCCAC--T-ACTCTCAGGGAGATAAAATTACTGG
** * * * *
83011081 CATCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGA-T-CTGTAAT
1 C-T--TCAATCTACTCCACTACT-CTCAGGGAGATAAAATTACTG---G
* * * *
83011128 CTTCAATCTATTCCACTGCTGCTTAGGGAGATAGAATTACTGG
1 CTTCAATCTACTCCACTACT-CTCAGGGAGATAAAATTACTGG
* * * * ***
83011171 CTTCAATGTACTCTACTGTAAC-CTCAGGGAGGTAAAATCCACCAT
1 CTTCAATCTACTCCAC--T-ACTCTCAGGGAGATAAAAT-TACTGG
* * * *
83011216 CTTTAATCTACTCCACTACTGCTTAGGGAGATAAGA-T-CTGTAAT
1 CTTCAATCTACTCCACTACT-CTCAGGGAGATAAAATTACTG---G
* *
83011260 CTTCAATCTATTCCACTACTGTCTAGGGAGATAAAATTACTGG
1 CTTCAATCTACTCCACTACTCTC-AGGGAGATAAAATTACTGG
* *
83011303 CTTCAATGTACTCCACTGTAAC-CTCAGGGAGGTAAAATT
1 CTTCAATCTACTCCAC--T-ACTCTCAGGGAGATAAAATT
83011342 TTCCATCTTC
Statistics
Matches: 221, Mismatches: 54, Indels: 55
0.67 0.16 0.17
Matches are distributed among these distances:
41 1 0.00
42 7 0.03
43 46 0.21
44 123 0.56
45 32 0.14
46 11 0.05
47 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (42 bp):
CTTCAATCTACTCCACTACTCTCAGGGAGATAAAATTACTGG
Found at i:83015386 original size:19 final size:19
Alignment explanation
Indices: 83015346--83015387 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
83015336 ATAATCTTTG
* *
83015346 ATGCATATGATGTAATGTA
1 ATGCAAATGATGAAATGTA
83015365 ATGCAAATGCATGAAATG-A
1 ATGCAAATG-ATGAAATGTA
83015384 ATGC
1 ATGC
83015388 GAAAAGAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (19 bp):
ATGCAAATGATGAAATGTA
Found at i:83017174 original size:23 final size:23
Alignment explanation
Indices: 83017142--83017208 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
83017132 TACATGTACT
*
83017142 TATAAAATATAAATAAAAATAAG
1 TATAATATATAAATAAAAATAAG
* * *
83017165 TATAATATATTAATAAAGTATGAG
1 TATAATATATAAATAAA-AATAAG
* *
83017189 TATATATATGTATATAAAAA
1 TATA-ATATATAAATAAAAA
83017209 AATATGAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
23 15 0.44
24 9 0.26
25 10 0.29
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.34
Consensus pattern (23 bp):
TATAATATATAAATAAAAATAAG
Found at i:83017213 original size:16 final size:16
Alignment explanation
Indices: 83017194--83017237 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
83017184 ATGAGTATAT
83017194 ATATGTATATAAAAAA
1 ATATGTATATAAAAAA
* * *
83017210 ATATGAAAATAAAATA
1 ATATGTATATAAAAAA
83017226 ATAATGTATATA
1 AT-ATGTATATA
83017238 TATATGAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (16 bp):
ATATGTATATAAAAAA
Found at i:83017979 original size:16 final size:15
Alignment explanation
Indices: 83017954--83017993 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
83017944 TTATTTTAGG
*
83017954 TAAAATAAAATGAAAA
1 TAAAAGAAAAT-AAAA
83017970 TAAAAGAAAATAAAA
1 TAAAAGAAAATAAAA
*
83017985 AAAAAGAAA
1 TAAAAGAAA
83017994 CGATGAACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.12
Consensus pattern (15 bp):
TAAAAGAAAATAAAA
Found at i:83017989 original size:10 final size:10
Alignment explanation
Indices: 83017955--83017988 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
83017945 TATTTTAGGT
83017955 AAAATAAAATG
1 AAAATAAAA-G
83017966 AAAATAAAAG
1 AAAATAAAAG
83017976 AAAATAAAA-
1 AAAATAAAAG
83017985 AAAA
1 AAAA
83017989 AGAAACGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 4 0.17
10 10 0.43
11 9 0.39
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (10 bp):
AAAATAAAAG
Found at i:83019022 original size:27 final size:27
Alignment explanation
Indices: 83018981--83019041 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
83018971 CATTTTAGTC
*
83018981 CATTGGCTCCATTGGTGCCGCCAATCT
1 CATTGGCACCATTGGTGCCGCCAATCT
* * *
83019008 CATTGGCACCTTTGGTGCCTCCAATGT
1 CATTGGCACCATTGGTGCCGCCAATCT
*
83019035 GATTGGC
1 CATTGGC
83019042 CTGATCAGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.15, C:0.30, G:0.25, T:0.31
Consensus pattern (27 bp):
CATTGGCACCATTGGTGCCGCCAATCT
Found at i:83024539 original size:32 final size:32
Alignment explanation
Indices: 83024469--83024542 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
83024459 TTAATTAATT
* * *
83024469 TTTAATTTAATCAATTTGATCTATCAATCTGA
1 TTTAATTTAATCAATTTAATCGATCAATCTAA
* * * *
83024501 TCTAATTTAATCAATTTAATCGGTTAATTTAA
1 TTTAATTTAATCAATTTAATCGATCAATCTAA
83024533 TTTAATTTAA
1 TTTAATTTAA
83024543 AGAAAAATTA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.49
Consensus pattern (32 bp):
TTTAATTTAATCAATTTAATCGATCAATCTAA
Found at i:83027392 original size:25 final size:26
Alignment explanation
Indices: 83027363--83027411 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
83027353 TATTAGCTCA
83027363 ATTTTTATTATTTCA-TTTAACAATT
1 ATTTTTATTATTTCATTTTAACAATT
83027388 ATTTTTATTATTTCATTTTAACAA
1 ATTTTTATTATTTCATTTTAACAA
83027412 AATTCTGTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (26 bp):
ATTTTTATTATTTCATTTTAACAATT
Found at i:83028242 original size:22 final size:22
Alignment explanation
Indices: 83028217--83028260 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
83028207 TGTGCTGCTG
*
83028217 TTTGCAATTTTTGGATT-ATTTA
1 TTTGCAAATTTT-GATTAATTTA
*
83028239 TTTGTAAATTTTGATTAATTTA
1 TTTGCAAATTTTGATTAATTTA
83028261 ATTATATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.27, C:0.02, G:0.11, T:0.59
Consensus pattern (22 bp):
TTTGCAAATTTTGATTAATTTA
Found at i:83029794 original size:12 final size:12
Alignment explanation
Indices: 83029777--83029807 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
83029767 TTTAGTTGTA
83029777 AATGGAGTCGAG
1 AATGGAGTCGAG
*
83029789 AATGGAGTTGAG
1 AATGGAGTCGAG
83029801 AATGGAG
1 AATGGAG
83029808 CATGCTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.42, T:0.19
Consensus pattern (12 bp):
AATGGAGTCGAG
Found at i:83030381 original size:72 final size:70
Alignment explanation
Indices: 83030172--83030389 Score: 222
Period size: 71 Copynumber: 3.1 Consensus size: 70
83030162 ATTAATTATC
* **
83030172 AAGTAAAATCGTTTATTTAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTTT
1 AAGTAAAAACGTTTATTTAATTATG-AATTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTTT
83030237 GATATT
65 GATATT
** * * * * * ** *
83030243 AAGCGAGACCGTTTATTTAGTTAT-ACATTTTCAAAAGCTTAATTTAGTTTGATTTATTAAAATT
1 AAGTAAAAACGTTTATTTAATTATGA-ATTTTAAAAAGGTTAATTTAGTTCAATTTATT-AAGTT
83030307 TGATATT
64 TGATATT
* * * * *
83030314 TAGTAAAAACGTTTGTTCAATTATGAATTTTAAAAAAGGTTAATTTAGTTCAACTTATTGAGTTT
1 AAGTAAAAACGTTTATTTAATTATGAATTTT-AAAAAGGTTAATTTAGTTCAATTTATTAAG-TT
83030379 TGATATT
64 TGATATT
83030386 AAGT
1 AAGT
83030390 GTAACCATTT
Statistics
Matches: 114, Mismatches: 28, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
70 27 0.24
71 52 0.46
72 35 0.31
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (70 bp):
AAGTAAAAACGTTTATTTAATTATGAATTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTTTG
ATATT
Found at i:83033640 original size:9 final size:9
Alignment explanation
Indices: 83033626--83033780 Score: 61
Period size: 9 Copynumber: 17.6 Consensus size: 9
83033616 AACTTTGGAT
83033626 CATAACTTA
1 CATAACTTA
*
83033635 CATAACTTG
1 CATAACTTA
83033644 CATAA--TA
1 CATAACTTA
*
83033651 CATAA-ATA
1 CATAACTTA
* * *
83033659 TATATCATA
1 CATAACTTA
*
83033668 TCATAAATTA
1 -CATAACTTA
*
83033678 CATAATTTA
1 CATAACTTA
83033687 CATAACTTA
1 CATAACTTA
83033696 CATAA--TA
1 CATAACTTA
***
83033703 CATAAAAAA
1 CATAACTTA
* * * *
83033712 AACATCATA
1 CATAACTTA
83033721 TCATAACTTA
1 -CATAACTTA
*
83033731 CATAATTTA
1 CATAACTTA
*
83033740 CATAATTTA
1 CATAACTTA
*
83033749 CATAA-ATA
1 CATAACTTA
* * *
83033757 TATATCATA
1 CATAACTTA
83033766 TCATAACTTA
1 -CATAACTTA
83033776 CATAA
1 CATAA
83033781 AACTTTGGAT
Statistics
Matches: 111, Mismatches: 27, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
7 13 0.12
8 10 0.09
9 72 0.65
10 16 0.14
ACGTcount: A:0.50, C:0.15, G:0.01, T:0.34
Consensus pattern (9 bp):
CATAACTTA
Found at i:83033690 original size:18 final size:18
Alignment explanation
Indices: 83033626--83033753 Score: 70
Period size: 18 Copynumber: 7.3 Consensus size: 18
83033616 AACTTTGGAT
* * *
83033626 CATAACTTACATAACTTG
1 CATAATTTACATAAATTA
83033644 CATAA--TACATAAATATA
1 CATAATTTACATAAAT-TA
* * *
83033661 TATCATAT-CATAAATTA
1 CATAATTTACATAAATTA
*
83033678 CATAATTTACATAACTTA
1 CATAATTTACATAAATTA
**
83033696 CATAA--TACATAAAAAAAA
1 CATAATTTACAT--AAATTA
* * *
83033714 CATCATAT-CATAACTTA
1 CATAATTTACATAAATTA
*
83033731 CATAATTTACATAATTTA
1 CATAATTTACATAAATTA
83033749 CATAA
1 CATAA
83033754 ATATATATCA
Statistics
Matches: 83, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
16 13 0.16
17 20 0.24
18 45 0.54
19 4 0.05
20 1 0.01
ACGTcount: A:0.50, C:0.16, G:0.01, T:0.34
Consensus pattern (18 bp):
CATAATTTACATAAATTA
Found at i:83033739 original size:53 final size:52
Alignment explanation
Indices: 83033626--83033753 Score: 184
Period size: 53 Copynumber: 2.4 Consensus size: 52
83033616 AACTTTGGAT
* * * * *
83033626 CATAACTTACATAACTTGCATAATACATAAATATATATCATATCATAAATTA
1 CATAATTTACATAACTTACATAATACATAAAAAAACATCATATCATAAATTA
*
83033678 CATAATTTACATAACTTACATAATACATAAAAAAAACATCATATCATAACTTA
1 CATAATTTACATAACTTACATAATACAT-AAAAAAACATCATATCATAAATTA
*
83033731 CATAATTTACATAATTTACATAA
1 CATAATTTACATAACTTACATAA
83033754 ATATATATCA
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
52 26 0.38
53 42 0.62
ACGTcount: A:0.50, C:0.16, G:0.01, T:0.34
Consensus pattern (52 bp):
CATAATTTACATAACTTACATAATACATAAAAAAACATCATATCATAAATTA
Found at i:83035303 original size:50 final size:50
Alignment explanation
Indices: 83035174--83035303 Score: 224
Period size: 50 Copynumber: 2.6 Consensus size: 50
83035164 GGTAAAGAGA
*
83035174 TCCCATGTAAGACCATGTCTGGGACATGGAGTTGGCACCGAGACAAGGGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACAAGGGG
* *
83035224 TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGACAATGGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACAAGGGG
*
83035274 TCCCCTGTAAGACCATGTCTGGGACATGGC
1 TCCCATGTAAGACCATGTCTGGGACATGGC
83035304 ATGGGCACTG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.21
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACAAGGGG
Found at i:83035311 original size:50 final size:50
Alignment explanation
Indices: 83035174--83035361 Score: 216
Period size: 50 Copynumber: 3.7 Consensus size: 50
83035164 GGTAAAGAGA
83035174 TCCCATGTAAGACCATGTCTGGGACATGG-AGTTGGCACCGAGACAAGGGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCA-TTGGCACCGAGACAAGGGG
* * *
83035224 TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGACAATGGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACAAGGGG
* * * * ** ***
83035274 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATGAGAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACAAG-GGG
* * *
83035325 TCTCATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
83035362 TGTTATGATC
Statistics
Matches: 116, Mismatches: 20, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
50 84 0.72
51 32 0.28
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACAAGGGG
Found at i:83044018 original size:41 final size:40
Alignment explanation
Indices: 83043964--83044042 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 40
83043954 TTTGTAAAAT
*
83043964 TAATGATAAATAAAATATTAAA-TAATTTAAATAATTTAATA
1 TAATGATAAATAAAATA-TAAATTAATCTAAAT-ATTTAATA
*
83044005 TAATGATACATAAAATATAAATTAATCTAAATATTTAA
1 TAATGATAAATAAAATATAAATTAATCTAAATATTTAA
83044043 ATACCTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
40 10 0.29
41 25 0.71
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (40 bp):
TAATGATAAATAAAATATAAATTAATCTAAATATTTAATA
Found at i:83062073 original size:67 final size:70
Alignment explanation
Indices: 83061965--83062103 Score: 230
Period size: 67 Copynumber: 2.0 Consensus size: 70
83061955 AATTTGTAAT
83061965 AAAGAAGAGTACCTCATATGGAACAAAAGTGAAAATA-TT-TTT-TTTATTAAATTGGAAATAAT
1 AAAGAAGAGTACCTCATATGGAACAAAAGTGAAAATATTTATTTATTTATTAAATTGGAAATAAT
83062027 GTCAG
66 GTCAG
*
83062032 AAAGAATAGTACCTCATATGGAACAAAAGTGAAAATATTTTTATTTATTTATTAAATTGGAAATA
1 AAAGAAGAGTACCTCATATGGAACAAAAGTGAAAATA--TTTATTTATTTATTAAATTGGAAATA
83062097 ATGTCAG
64 ATGTCAG
83062104 CTTTGTTTTT
Statistics
Matches: 66, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
67 36 0.55
70 2 0.03
71 3 0.05
72 25 0.38
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (70 bp):
AAAGAAGAGTACCTCATATGGAACAAAAGTGAAAATATTTATTTATTTATTAAATTGGAAATAAT
GTCAG
Found at i:83066100 original size:54 final size:54
Alignment explanation
Indices: 83066000--83066103 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
83065990 GTTAAACTAT
* * *
83066000 CTAGCACACGGCCTATGACACAACCGTGTGACACAAGTTAGAGAGTTACACGGC
1 CTAGCACACGGCCTACGACACAACCGTGTGACACAAATCAGAGAGTTACACGGC
* * *
83066054 CTAGCATACGGCCTACGACACGACCGTGTGAC-CTAAATCAGTGAGTTACA
1 CTAGCACACGGCCTACGACACAACCGTGTGACAC-AAATCAGAGAGTTACA
83066104 TGGGCTAGGA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.02
54 42 0.98
ACGTcount: A:0.31, C:0.28, G:0.23, T:0.18
Consensus pattern (54 bp):
CTAGCACACGGCCTACGACACAACCGTGTGACACAAATCAGAGAGTTACACGGC
Found at i:83069426 original size:3 final size:3
Alignment explanation
Indices: 83069418--83069444 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
83069408 CACACACACA
83069418 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
83069445 GCAATTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:83071558 original size:17 final size:18
Alignment explanation
Indices: 83071532--83071565 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
83071522 TTTATGGTTG
*
83071532 TTGTTGTAGA-TAAAAAA
1 TTGTTATAGAGTAAAAAA
83071549 TTGTTATAGAGTAAAAA
1 TTGTTATAGAGTAAAAA
83071566 GAAAACATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (18 bp):
TTGTTATAGAGTAAAAAA
Found at i:83073190 original size:16 final size:17
Alignment explanation
Indices: 83073165--83073197 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
83073155 ATTTTAAAAA
83073165 AACTGATTAAAA-TGCC
1 AACTGATTAAAACTGCC
*
83073181 AACTGGTTAAAACTGCC
1 AACTGATTAAAACTGCC
83073198 TTTAGATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.24
Consensus pattern (17 bp):
AACTGATTAAAACTGCC
Found at i:83081336 original size:106 final size:106
Alignment explanation
Indices: 83081198--83081389 Score: 269
Period size: 106 Copynumber: 1.8 Consensus size: 106
83081188 AAGATATAAG
* * * *
83081198 AGGATATTTGGCTATTTGGTCAAACAAAAAAATCGAAACCTAGCACATTAGGGCAC-ATTTCCTC
1 AGGATATTTGGCTATTCGGTCAAACAAAAAAATCGAAACCCAACACATTAGGACACGATTT-CTC
*
83081262 GAATTTCTAAACGCAAAATATTACCTTACTTTGAAATTTTAA
65 GAATTTCCAAACGCAAAATATTACCTTACTTTGAAATTTTAA
* * * * *
83081304 AGGATATTTGGCTATTCGGTCGAACGAAAAAATTGAAACCCAACACATTAGGATACGCTTTCTCG
1 AGGATATTTGGCTATTCGGTCAAACAAAAAAATCGAAACCCAACACATTAGGACACGATTTCTCG
*
83081369 AATTTCCAAATGCAAAATATT
66 AATTTCCAAACGCAAAATATT
83081390 GCATTTATTA
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
106 71 0.96
107 3 0.04
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.30
Consensus pattern (106 bp):
AGGATATTTGGCTATTCGGTCAAACAAAAAAATCGAAACCCAACACATTAGGACACGATTTCTCG
AATTTCCAAACGCAAAATATTACCTTACTTTGAAATTTTAA
Found at i:83082371 original size:62 final size:59
Alignment explanation
Indices: 83082250--83082382 Score: 169
Period size: 62 Copynumber: 2.2 Consensus size: 59
83082240 ACATGAGTTT
* * *
83082250 AAAAATACGTGTATAAAGATATATAATATAAGATGCAAGGTATATATATATGAAAATTA
1 AAAAATACGTATATAAAGATATATAATATAAGATACAAAGTATATATATATGAAAATTA
* * *
83082309 AAAAATGCGTATATAAAGATATATAATGATGTAAGATATAAAGTATGTATATATGAAAATT-
1 AAAAATACGTATATAAAGATATATAAT-A--TAAGATACAAAGTATATATATATGAAAATTA
*
83082370 AAAAATATGTATA
1 AAAAATACGTATA
83082383 GATGTGTAGA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
59 25 0.40
60 1 0.02
61 11 0.17
62 26 0.41
ACGTcount: A:0.53, C:0.02, G:0.14, T:0.32
Consensus pattern (59 bp):
AAAAATACGTATATAAAGATATATAATATAAGATACAAAGTATATATATATGAAAATTA
Found at i:83091739 original size:23 final size:23
Alignment explanation
Indices: 83091709--83091754 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
83091699 AATGATTAAT
83091709 TTAATATTTTTTTCTTGTAAAAG
1 TTAATATTTTTTTCTTGTAAAAG
83091732 TTAATATTTTTTTCTTGTAAAAG
1 TTAATATTTTTTTCTTGTAAAAG
83091755 GTGAATACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (23 bp):
TTAATATTTTTTTCTTGTAAAAG
Found at i:83091761 original size:24 final size:23
Alignment explanation
Indices: 83091711--83091761 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
83091701 TGATTAATTT
*
83091711 AATATTTTTTTCTTGTAAAAGTT
1 AATATTTTTTTCTTGTAAAAGTG
83091734 AATATTTTTTTCTTGTAAAAGGTG
1 AATATTTTTTTCTTGTAAAA-GTG
83091758 AATA
1 AATA
83091762 CCATTGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (23 bp):
AATATTTTTTTCTTGTAAAAGTG
Found at i:83106046 original size:3 final size:3
Alignment explanation
Indices: 83106032--83106098 Score: 100
Period size: 3 Copynumber: 22.7 Consensus size: 3
83106022 TGGGAAATAA
* **
83106032 AAG AAA AAG AAG AAG CGG AA- AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
83106079 AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AA
83106099 AATGATGATG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.67, C:0.01, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:83106120 original size:3 final size:3
Alignment explanation
Indices: 83106114--83106161 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
83106104 TGATGATGAT
* * *
83106114 GAG GAG GAG GGG GAG GAG GAG GAG GAG GAA GAG AAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
83106162 AAGAGAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:83106759 original size:47 final size:47
Alignment explanation
Indices: 83106707--83106800 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
83106697 GTTACATGGC
* *
83106707 TTTGGAAAGGAAAGTTAATGGACTTGAATGATAAATATACCAATTAA
1 TTTGGAAAGGAAAGTTAATAGACTTGAATGATAAATATACAAATTAA
83106754 TTTGGAAAGGAAAGTTAATAGACTTGAATGATAAATATACAAATTAA
1 TTTGGAAAGGAAAGTTAATAGACTTGAATGATAAATATACAAATTAA
83106801 AGAGTTAGTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.30
Consensus pattern (47 bp):
TTTGGAAAGGAAAGTTAATAGACTTGAATGATAAATATACAAATTAA
Found at i:83108977 original size:3 final size:3
Alignment explanation
Indices: 83108969--83109025 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
83108959 TCATCTTTAT
* *
83108969 TTC TTC TTC TTC TTT TTC TTC TTC TTC TTA TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
83109017 TTC TTC TTC
1 TTC TTC TTC
83109026 GTACCAGATA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:83112744 original size:20 final size:18
Alignment explanation
Indices: 83112696--83112745 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
83112686 TAATAAAATG
83112696 TATTAAATTAA-ATTTAA
1 TATTAAATTAATATTTAA
83112713 TATTAAGA-TAATCACTTTAA
1 TATTAA-ATTAAT-A-TTTAA
83112733 TATTAAATTAATA
1 TATTAAATTAATA
83112746 AAATATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 9 0.32
18 1 0.04
19 3 0.11
20 15 0.54
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (18 bp):
TATTAAATTAATATTTAA
Found at i:83114144 original size:15 final size:15
Alignment explanation
Indices: 83114120--83114151 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
83114110 TATGCATGCA
*
83114120 AAATATAAAAGACAT
1 AAATACAAAAGACAT
83114135 AAATACAAAAGACAT
1 AAATACAAAAGACAT
83114150 AA
1 AA
83114152 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:83115436 original size:11 final size:11
Alignment explanation
Indices: 83115420--83115450 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
83115410 TCTTCTCATA
83115420 TGGTATTTATT
1 TGGTATTTATT
83115431 TGGTATTTATT
1 TGGTATTTATT
*
83115442 TAGTATTTA
1 TGGTATTTA
83115451 GGAAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.16, T:0.61
Consensus pattern (11 bp):
TGGTATTTATT
Found at i:83118619 original size:40 final size:40
Alignment explanation
Indices: 83118564--83118698 Score: 159
Period size: 40 Copynumber: 3.4 Consensus size: 40
83118554 AGCAGTTTGG
*
83118564 CACCCAGTGCCTCATTGGATAATTCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATTGGATAATCCGAAGTAATAAATTGA
* * * *
83118604 CACCCAGTGTCTCATTGGCTAAACCGAAGT-AT--ATTGG
1 CACCCAGTGCCTCATTGGATAATCCGAAGTAATAAATTGA
* * *
83118641 CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATTGGA-TAATCCGAAGTAATAAATTGA
*
83118682 CACCCAGTGTCTCATTG
1 CACCCAGTGCCTCATTG
83118699 ACTCGAAGTC
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
37 19 0.25
38 10 0.13
39 3 0.04
40 26 0.34
41 19 0.25
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (40 bp):
CACCCAGTGCCTCATTGGATAATCCGAAGTAATAAATTGA
Found at i:83119613 original size:3 final size:3
Alignment explanation
Indices: 83119605--83119653 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
83119595 TTTCTTTCTT
83119605 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
83119653 T
1 T
83119654 AATATATAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:83138364 original size:10 final size:10
Alignment explanation
Indices: 83138335--83138364 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
83138325 ATTTGCAGAC
83138335 AAAAAAATAA
1 AAAAAAATAA
*
83138345 AAAAAGATAA
1 AAAAAAATAA
83138355 AAAAAAATAA
1 AAAAAAATAA
83138365 TCCTACACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:83143229 original size:20 final size:20
Alignment explanation
Indices: 83143204--83143241 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
83143194 ACGGTATCCA
83143204 AACAAAGGTTAGAAAAATGG
1 AACAAAGGTTAGAAAAATGG
*
83143224 AACAAAGGTTGGAAAAAT
1 AACAAAGGTTAGAAAAAT
83143242 TAGAGCGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.05, G:0.24, T:0.16
Consensus pattern (20 bp):
AACAAAGGTTAGAAAAATGG
Found at i:83145316 original size:35 final size:35
Alignment explanation
Indices: 83145259--83145475 Score: 92
Period size: 35 Copynumber: 6.1 Consensus size: 35
83145249 TCCAATTAAA
83145259 AAAAATCAAAATCAAAAACAAAAAGAAGAA-AAAAG
1 AAAAATCAAAATCAAAAACAAAAAGAA-AATAAAAG
*** * *
83145294 AAAAATCAAAATCAAGGTCAAAATGAAAATAAGAG
1 AAAAATCAAAATCAAAAACAAAAAGAAAATAAAAG
* ** * **
83145329 AAAAA-GAAAGAAGAATGAAA-AAAGAGAAAA-ATCTAG
1 AAAAATCAAA-ATCAA--AAACAAAAAGAAAATA-AAAG
* *
83145365 ATGAAA--AAAATCAAAGTAA-AAAAATGAAAAGTGAAA-
1 A-AAAATCAAAATCAAA--AACAAAAA-GAAAA-TAAAAG
* *
83145401 AAAAATCAAAATAAAAAACGAAAAGAAGAA-AAAAG
1 AAAAATCAAAATCAAAAACAAAAAGAA-AATAAAAG
*** * *
83145436 AAAAATCAAAATCAATGTCAAAATGAAAATAAGAG
1 AAAAATCAAAATCAAAAACAAAAAGAAAATAAAAG
83145471 AAAAA
1 AAAAA
83145476 GAATGAAGAA
Statistics
Matches: 132, Mismatches: 33, Indels: 34
0.66 0.17 0.17
Matches are distributed among these distances:
33 1 0.01
34 10 0.08
35 83 0.63
36 26 0.20
37 12 0.09
ACGTcount: A:0.71, C:0.06, G:0.13, T:0.11
Consensus pattern (35 bp):
AAAAATCAAAATCAAAAACAAAAAGAAAATAAAAG
Done.