Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 56 of 59
Found at i:20341363 original size:26 final size:27
Alignment explanation
Indices: 20341320--20341371 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
20341310 TTAATTATAT
*
20341320 TAAAAATATATAAAAATTAA-AAAATA
1 TAAAAATATAAAAAAATTAATAAAATA
20341346 TAAAAATA-AAAAATAATTAATAAAAT
1 TAAAAATATAAAAA-AATTAATAAAAT
20341372 TATTTGTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 4 0.17
26 14 0.61
27 5 0.22
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (27 bp):
TAAAAATATAAAAAAATTAATAAAATA
Found at i:20342672 original size:258 final size:258
Alignment explanation
Indices: 20342214--20342729 Score: 1016
Period size: 258 Copynumber: 2.0 Consensus size: 258
20342204 GCGACGTCCC
20342214 GATAGGCACTCATTACCCCGAATGCCGATCGAAACCCCGCAAGGCTTAGCATCAGCTTTCGTATC
1 GATAGGCACTCATTACCCCGAATGCCGATCGAAACCCCGCAAGGCTTAGCATCAGCTTTCGTATC
20342279 TTCCCAGTGAGCGACAGTTATTAAATCTCACATTTCAAAAAAATCATAAGTCATTTTCAAATCAA
66 TTCCCAGTGAGCGACAGTTATTAAATCTCACATTTCAAAAAAATCATAAGTCATTTTCAAATCAA
20342344 AACAATAAAATAGTACTTTCTGGCTCACATGGGCATTTTCGTCATTTTCGTCATTTTTTTTTAAA
131 AACAATAAAATAGTACTTTCTGGCTCACATGGGCATTTTCGTCATTTTCGTCATTTTTTTTTAAA
20342409 AATACCGAAACTCGCCAAAAACATGGTGTAAAAGCTAAATATATTCATACATACTTTAAATCA
196 AATACCGAAACTCGCCAAAAACATGGTGTAAAAGCTAAATATATTCATACATACTTTAAATCA
20342472 NGATAGGCACTCATTACCCCGAATGCCGAT-GAAACCCCGCAAGGCTTAGCATCAGCTTTCGTAT
1 -GATAGGCACTCATTACCCCGAATGCCGATCGAAACCCCGCAAGGCTTAGCATCAGCTTTCGTAT
20342536 CTTCCCAGTGAGCGACAGTTATTAAATCTCACATTTCAAAAAAATCATAAGTCATTTTCAAATCA
65 CTTCCCAGTGAGCGACAGTTATTAAATCTCACATTTCAAAAAAATCATAAGTCATTTTCAAATCA
20342601 AAACAATAAAATAGTACTTTCTGGCTCACATGGGCATTTTCGTCATTTTCGTCATTTTTTTTTAA
130 AAACAATAAAATAGTACTTTCTGGCTCACATGGGCATTTTCGTCATTTTCGTCATTTTTTTTTAA
20342666 AAATACCGAAACTCGCCAAAAACATGGTGTAAAAGCTAAATATATTCATACATACTTTAAATCA
195 AAATACCGAAACTCGCCAAAAACATGGTGTAAAAGCTAAATATATTCATACATACTTTAAATCA
20342730 AATAACTGAA
Statistics
Matches: 257, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
258 228 0.89
259 29 0.11
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (258 bp):
GATAGGCACTCATTACCCCGAATGCCGATCGAAACCCCGCAAGGCTTAGCATCAGCTTTCGTATC
TTCCCAGTGAGCGACAGTTATTAAATCTCACATTTCAAAAAAATCATAAGTCATTTTCAAATCAA
AACAATAAAATAGTACTTTCTGGCTCACATGGGCATTTTCGTCATTTTCGTCATTTTTTTTTAAA
AATACCGAAACTCGCCAAAAACATGGTGTAAAAGCTAAATATATTCATACATACTTTAAATCA
Found at i:20343477 original size:129 final size:130
Alignment explanation
Indices: 20343237--20343495 Score: 394
Period size: 129 Copynumber: 2.0 Consensus size: 130
20343227 GTGGCCCGAA
* * *
20343237 CGTGAGGTGCACTCAAATCATACCTTAGGAGATATTTCACCCAACATCTCCCCCTCGGAGGTGAA
1 CGTGAGGTGCACTCAAATCATACCTCAGGAGATACTTCACCCAACATCTCCCCCTCGGAGGTAAA
* * * *
20343302 TATATAATTGAGTTACCATGCTCCTCTCGTAGGCAGTCCACGAAAACCCCCACCACTGCAGTGAC
66 TATATAATTGAGTTACCATGCCCCTCTCATAGGCAGTCCACAAAAACCCCCACCACTACAGTGAC
* * *
20343367 CGTGAGGTGCATTCAAATCTTACCTCAGGAGATACTTCATCCAACATCTCCCCC-CGGAGGTAAA
1 CGTGAGGTGCACTCAAATCATACCTCAGGAGATACTTCACCCAACATCTCCCCCTCGGAGGTAAA
* * *
20343431 TATATAATTGGGTTACCGTGCCCCTCTCATAGGCAGTCCACAAAAACCCCTACCACTACAGTGAC
66 TATATAATTGAGTTACCATGCCCCTCTCATAGGCAGTCCACAAAAACCCCCACCACTACAGTGAC
20343496 TGTTTAATAT
Statistics
Matches: 116, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
129 67 0.58
130 49 0.42
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (130 bp):
CGTGAGGTGCACTCAAATCATACCTCAGGAGATACTTCACCCAACATCTCCCCCTCGGAGGTAAA
TATATAATTGAGTTACCATGCCCCTCTCATAGGCAGTCCACAAAAACCCCCACCACTACAGTGAC
Found at i:20347627 original size:21 final size:21
Alignment explanation
Indices: 20347603--20347646 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
20347593 TGTTTAACAT
*
20347603 TTACATAAATGGATTTTGCCA
1 TTACATAAATGGAATTTGCCA
20347624 TTACATAAATGGAATTTGCCA
1 TTACATAAATGGAATTTGCCA
20347645 TT
1 TT
20347647 GGCCAGCGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (21 bp):
TTACATAAATGGAATTTGCCA
Found at i:20348341 original size:40 final size:40
Alignment explanation
Indices: 20348286--20348369 Score: 150
Period size: 40 Copynumber: 2.1 Consensus size: 40
20348276 TTGATTTTGA
*
20348286 TTAGAAATTTAACCTTTATCTTGTCTTAGTTATATTAGAT
1 TTAGAAATTAAACCTTTATCTTGTCTTAGTTATATTAGAT
*
20348326 TTAGAAATTAAACCTTTATCTTGTCTTAGTTATATTGGAT
1 TTAGAAATTAAACCTTTATCTTGTCTTAGTTATATTAGAT
20348366 TTAG
1 TTAG
20348370 TTTTTAGCCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.49
Consensus pattern (40 bp):
TTAGAAATTAAACCTTTATCTTGTCTTAGTTATATTAGAT
Found at i:20348704 original size:12 final size:12
Alignment explanation
Indices: 20348687--20348713 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
20348677 ATCAAAATCA
20348687 TTAACATTAAGG
1 TTAACATTAAGG
20348699 TTAACATTAAGG
1 TTAACATTAAGG
20348711 TTA
1 TTA
20348714 TAGCTAGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (12 bp):
TTAACATTAAGG
Found at i:20350768 original size:77 final size:73
Alignment explanation
Indices: 20350641--20350797 Score: 224
Period size: 77 Copynumber: 2.1 Consensus size: 73
20350631 CTGAATTGTT
* *
20350641 TAGCACTTACCAAGTCTCTTTAGCTATTCCCTGATATAGTTAGGTGTCTCACATTAATTAATGCT
1 TAGCACTTACCAAGACTCTTTAACTATTCCCTGATATAGTTAGGTGTCTCAC----ATTAATGCT
20350706 GTAAATATGATG
62 GTAAATATGATG
* * * *
20350718 TAGCATTTACCAAGACTCTTTAACTTTTTCCTGATATTGTTAGGTGTCTCACATTAATGCTGTAA
1 TAGCACTTACCAAGACTCTTTAACTATTCCCTGATATAGTTAGGTGTCTCACATTAATGCTGTAA
20350783 ATATGATG
66 ATATGATG
20350791 TAGCACT
1 TAGCACT
20350798 AGAAGATTGC
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
73 27 0.37
77 46 0.63
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (73 bp):
TAGCACTTACCAAGACTCTTTAACTATTCCCTGATATAGTTAGGTGTCTCACATTAATGCTGTAA
ATATGATG
Found at i:20354412 original size:21 final size:21
Alignment explanation
Indices: 20354386--20354429 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
20354376 TGTTTATCAC
20354386 TTACATAAACGGAATTTGCCA
1 TTACATAAACGGAATTTGCCA
*
20354407 TTACATAAATGGAATTTGCCA
1 TTACATAAACGGAATTTGCCA
20354428 TT
1 TT
20354430 GGCTAGCGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (21 bp):
TTACATAAACGGAATTTGCCA
Found at i:20355148 original size:5 final size:5
Alignment explanation
Indices: 20355140--20355228 Score: 137
Period size: 5 Copynumber: 18.0 Consensus size: 5
20355130 ATAAATTAAA
20355140 AAAAT AAAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
* *
20355191 AAAAT AAAAT -AAAT -AAAT AAAAA AAAAT AAAAA AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
20355229 CGGGATGGCT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
4 8 0.10
5 65 0.83
6 5 0.06
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:20356058 original size:12 final size:12
Alignment explanation
Indices: 20356041--20356065 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20356031 ATTTAATATT
20356041 AAAAAAATAATA
1 AAAAAAATAATA
20356053 AAAAAAATAATA
1 AAAAAAATAATA
20356065 A
1 A
20356066 TAATAGTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAAAATAATA
Found at i:20404842 original size:8 final size:8
Alignment explanation
Indices: 20404829--20404886 Score: 62
Period size: 8 Copynumber: 7.2 Consensus size: 8
20404819 ATTGTGAAAC
20404829 TGTATATA
1 TGTATATA
20404837 TGTATATA
1 TGTATATA
**
20404845 TACATATA
1 TGTATATA
*
20404853 TATATATA
1 TGTATATA
*
20404861 TGTATGTA
1 TGTATATA
*
20404869 TGTAAATA
1 TGTATATA
*
20404877 TGTAAATA
1 TGTATATA
20404885 TG
1 TG
20404887 AATGTATGCA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 43 1.00
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (8 bp):
TGTATATA
Found at i:20404877 original size:24 final size:24
Alignment explanation
Indices: 20404831--20404896 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 24
20404821 TGTGAAACTG
* * *
20404831 TATATATGTATATATACATATATA
1 TATATATGTATGTATGCAAATATA
* *
20404855 TATATATGTATGTATGTAAATATG
1 TATATATGTATGTATGCAAATATA
* *
20404879 TAAATATGAATGTATGCA
1 TATATATGTATGTATGCA
20404897 TTCATTTTGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (24 bp):
TATATATGTATGTATGCAAATATA
Found at i:20408669 original size:2 final size:2
Alignment explanation
Indices: 20408657--20408700 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
20408647 ATTAATGATA
*
20408657 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20408698 AT A
1 AT A
20408701 CACTATCAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20408962 original size:19 final size:19
Alignment explanation
Indices: 20408935--20408981 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
20408925 AACCAAAGAG
*
20408935 ATAAGATAAAATTTT-TAAA
1 ATAAAATAAAATTTTAT-AA
* *
20408954 ATAAAATAATATTTTATTA
1 ATAAAATAAAATTTTATAA
20408973 ATAAAATAA
1 ATAAAATAA
20408982 TATTAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 23 0.96
20 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
ATAAAATAAAATTTTATAA
Found at i:20410056 original size:19 final size:19
Alignment explanation
Indices: 20410029--20410066 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
20410019 CCATTTGACT
20410029 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
20410048 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
20410067 GTTAAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:20415997 original size:18 final size:18
Alignment explanation
Indices: 20415951--20415997 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
20415941 TTTATGAGAA
*
20415951 AAATATGAATTTATAAAAT
1 AAAT-TGAAATTATAAAAT
*
20415970 AAA-TGGAATTATAAAAT
1 AAATTGAAATTATAAAAT
20415987 AAATTGAAATT
1 AAATTGAAATT
20415998 TTTATAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 15 0.62
18 6 0.25
19 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (18 bp):
AAATTGAAATTATAAAAT
Found at i:20418355 original size:47 final size:41
Alignment explanation
Indices: 20418324--20418441 Score: 175
Period size: 41 Copynumber: 2.9 Consensus size: 41
20418314 TGTTTAGTAC
* *
20418324 TAACTTTGTTTGACACAAACACTATGTATTGTTTTTTATTG
1 TAACTTTCTTTAACACAAACACTATGTATTGTTTTTTATTG
*
20418365 TAATTTTCTTTAACACAAACACTATGTATTGTTTTTTATTG
1 TAACTTTCTTTAACACAAACACTATGTATTGTTTTTTATTG
* *
20418406 TAATTTTCTTTAACACAAACACTTAT-TATTATTTTT
1 TAACTTTCTTTAACACAAACAC-TATGTATTGTTTTT
20418442 AATATTAAAT
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 69 0.96
42 3 0.04
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.51
Consensus pattern (41 bp):
TAACTTTCTTTAACACAAACACTATGTATTGTTTTTTATTG
Found at i:20418381 original size:41 final size:41
Alignment explanation
Indices: 20418336--20418441 Score: 187
Period size: 41 Copynumber: 2.6 Consensus size: 41
20418326 ACTTTGTTTG
20418336 ACACAAACACTATGTATTGTTTTTTATTGTAATTTTCTTTA
1 ACACAAACACTATGTATTGTTTTTTATTGTAATTTTCTTTA
20418377 ACACAAACACTATGTATTGTTTTTTATTGTAATTTTCTTTA
1 ACACAAACACTATGTATTGTTTTTTATTGTAATTTTCTTTA
*
20418418 ACACAAACACTTAT-TATTATTTTT
1 ACACAAACAC-TATGTATTGTTTTT
20418442 AATATTAAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
41 60 0.95
42 3 0.05
ACGTcount: A:0.31, C:0.13, G:0.06, T:0.50
Consensus pattern (41 bp):
ACACAAACACTATGTATTGTTTTTTATTGTAATTTTCTTTA
Found at i:20420345 original size:21 final size:21
Alignment explanation
Indices: 20420321--20420364 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
20420311 TGTTTAACAT
*
20420321 TTACATAAATGGATTTTGCCA
1 TTACATAAATGGAATTTGCCA
20420342 TTACATAAATGGAATTTGCCA
1 TTACATAAATGGAATTTGCCA
20420363 TT
1 TT
20420365 GGCCAGCGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (21 bp):
TTACATAAATGGAATTTGCCA
Found at i:20424353 original size:77 final size:77
Alignment explanation
Indices: 20424257--20424487 Score: 399
Period size: 77 Copynumber: 3.0 Consensus size: 77
20424247 GACGATTTAG
*
20424257 TTTACCAAGTCTCTTTAGCTATTCCCTGATATAGTTAGGTGTCTCACATTAATTAATGCTGTAAA
1 TTTACCAAGTCTCTTTAGCTTTTCCCTGATATAGTTAGGTGTCTCACATTAATTAATGCTGTAAA
*
20424322 TATGACGTAGCA
66 TATGATGTAGCA
*
20424334 TTTACCAAGTCTCTTTAGCTTTTCCCTGATACAGTTAGGTGTCTCACATTAATTAATGCTGTAAA
1 TTTACCAAGTCTCTTTAGCTTTTCCCTGATATAGTTAGGTGTCTCACATTAATTAATGCTGTAAA
20424399 TATGATGTAGCA
66 TATGATGTAGCA
* * * *
20424411 TTTACCAAGACTCTTAAGCTTTTTCCTGATATAGTTACGTGTCTCACATTAATTAATGCTGTAAA
1 TTTACCAAGTCTCTTTAGCTTTTCCCTGATATAGTTAGGTGTCTCACATTAATTAATGCTGTAAA
20424476 TATGATGTAGCA
66 TATGATGTAGCA
20424488 CTAGAAGATA
Statistics
Matches: 146, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 146 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.39
Consensus pattern (77 bp):
TTTACCAAGTCTCTTTAGCTTTTCCCTGATATAGTTAGGTGTCTCACATTAATTAATGCTGTAAA
TATGATGTAGCA
Found at i:20427745 original size:21 final size:21
Alignment explanation
Indices: 20427719--20427762 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
20427709 TGTTTATCAC
20427719 TTACATAAACGGAACTTGCCA
1 TTACATAAACGGAACTTGCCA
* *
20427740 TTACATAAATGGAATTTGCCA
1 TTACATAAACGGAACTTGCCA
20427761 TT
1 TT
20427763 GGCTAGCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (21 bp):
TTACATAAACGGAACTTGCCA
Found at i:20428180 original size:85 final size:84
Alignment explanation
Indices: 20428037--20428193 Score: 271
Period size: 85 Copynumber: 1.9 Consensus size: 84
20428027 TACGACCCGA
*
20428037 TACTCCCATCGAGCCCGTGACAACGCCCGCGGTACACTGATAGACATTTATTTCTCGGAATGCCA
1 TACTCCCATAGAGCCCGTGACAACGCCCGCGGTACACTGATAGACATTTATTTCTCGGAATGCCA
20428102 ACCGGGATCTCGCAAGACNG
66 ACCGGGATCTCGCAAGAC-G
*
20428122 TACTCCCGTAGAGCCCGTGACAACAG-CCGCGGTACACTGATAGACATTTATTTCTCGGAATGCC
1 TACTCCCATAGAGCCCGTGACAAC-GCCCGCGGTACACTGATAGACATTTATTTCTCGGAATGCC
20428186 AACCGGGA
65 AACCGGGA
20428194 CCCCGCAAAG
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
85 68 0.99
86 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.20
Consensus pattern (84 bp):
TACTCCCATAGAGCCCGTGACAACGCCCGCGGTACACTGATAGACATTTATTTCTCGGAATGCCA
ACCGGGATCTCGCAAGACG
Found at i:20436178 original size:28 final size:28
Alignment explanation
Indices: 20436128--20436182 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
20436118 TTAATTTGGA
* * *
20436128 AACTTAATTAAACATTGAGATCCAAAGC
1 AACTTAATTAAAAATTAAAATCCAAAGC
20436156 AACTTAATTAAAAATTAAAATCCAAAG
1 AACTTAATTAAAAATTAAAATCCAAAG
20436183 GATTCTAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.53, C:0.15, G:0.07, T:0.25
Consensus pattern (28 bp):
AACTTAATTAAAAATTAAAATCCAAAGC
Found at i:20439772 original size:78 final size:78
Alignment explanation
Indices: 20439643--20439800 Score: 262
Period size: 78 Copynumber: 2.0 Consensus size: 78
20439633 TGAGAACTTA
* * * *
20439643 ATAAAGATGAATAATAGATAATTTTGTCATAAATATCACTGAAGACACTACCATCAAATCAATTC
1 ATAAAGATGAATAACAGATAATTTGGTCATAAACATCACTGAAGACACTACCATCAAATCAATTA
20439708 TCCACATCACAAG
66 TCCACATCACAAG
* *
20439721 ATAAAGATGTATCACAGATAATTTGGTCATAAACATCACTGAAGACACTACCATCAAATCAATTA
1 ATAAAGATGAATAACAGATAATTTGGTCATAAACATCACTGAAGACACTACCATCAAATCAATTA
20439786 TCCACATCACAAG
66 TCCACATCACAAG
20439799 AT
1 AT
20439801 TTTAATTCTT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.26
Consensus pattern (78 bp):
ATAAAGATGAATAACAGATAATTTGGTCATAAACATCACTGAAGACACTACCATCAAATCAATTA
TCCACATCACAAG
Found at i:20441938 original size:38 final size:38
Alignment explanation
Indices: 20441887--20441963 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
20441877 TTATTGTGAC
20441887 TTCTTTTAACTGATTATAACTTACGAGTCAGATTTTTT
1 TTCTTTTAACTGATTATAACTTACGAGTCAGATTTTTT
*
20441925 TTCTTTTAACTGATTATAACTTATGAGTCAGATTTTTT
1 TTCTTTTAACTGATTATAACTTACGAGTCAGATTTTTT
20441963 T
1 T
20441964 ACAACTCCCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.12, G:0.10, T:0.52
Consensus pattern (38 bp):
TTCTTTTAACTGATTATAACTTACGAGTCAGATTTTTT
Found at i:20446867 original size:19 final size:18
Alignment explanation
Indices: 20446825--20446867 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
20446815 TTTTTTGGCT
* *
20446825 TGTTTAAATAAATATATT
1 TGTTTAAATAAATAAATA
*
20446843 TTTTTAAGATAAATAAATA
1 TGTTTAA-ATAAATAAATA
20446862 TGTTTA
1 TGTTTA
20446868 CTCCTTAATG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (18 bp):
TGTTTAAATAAATAAATA
Found at i:20457272 original size:45 final size:45
Alignment explanation
Indices: 20457208--20457327 Score: 159
Period size: 45 Copynumber: 2.7 Consensus size: 45
20457198 CTTAATAAAA
* *
20457208 TTACACGTCATGTACAAAAACATGTTACACGTCATGGTTAGGTTG
1 TTACACGCCATATACAAAAACATGTTACACGTCATGGTTAGGTTG
* * *
20457253 TTACACGCCGTATACAAAAACATGTGATACGTCATGGTTAGGTTG
1 TTACACGCCATATACAAAAACATGTTACACGTCATGGTTAGGTTG
** * *
20457298 TTACACGTTATGTAAAAAAACATGTTACAC
1 TTACACGCCATATACAAAAACATGTTACAC
20457328 ACCATGTACA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (45 bp):
TTACACGCCATATACAAAAACATGTTACACGTCATGGTTAGGTTG
Found at i:20457325 original size:69 final size:70
Alignment explanation
Indices: 20457251--20457390 Score: 192
Period size: 69 Copynumber: 2.0 Consensus size: 70
20457241 ATGGTTAGGT
* * * * * * *
20457251 TGTTACACGCCGTATACAAAAACATGTGATACGTCATGG-TTAGGTTGTTACACGTTATGTAAAA
1 TGTTACACACCATATACAAAAACATATGACACGACATGGTTTAAGTTGTTACACGCTATGTAAAA
20457315 AAACA
66 AAACA
* *
20457320 TGTTACACACCATGTACAAAAACATATGACACGACATGGTTTAAGTTGTTACACGCTATGTACAA
1 TGTTACACACCATATACAAAAACATATGACACGACATGGTTTAAGTTGTTACACGCTATGTAAAA
20457385 AAACA
66 AAACA
20457390 T
1 T
20457391 ATGACATGCC
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
69 33 0.54
70 28 0.46
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (70 bp):
TGTTACACACCATATACAAAAACATATGACACGACATGGTTTAAGTTGTTACACGCTATGTAAAA
AAACA
Found at i:20457373 original size:46 final size:45
Alignment explanation
Indices: 20457320--20457432 Score: 145
Period size: 46 Copynumber: 2.5 Consensus size: 45
20457310 TAAAAAAACA
*
20457320 TGTTACACACCATGTACAAAAACATATGACACGACATGGTTTAAGT
1 TGTTACACACCATGTACAAAAACATATGACACGACATAG-TTAAGT
* * * * **
20457366 TGTTACACGCTATGTACAAAAACATATGACATGCCATAGTTCGGT
1 TGTTACACACCATGTACAAAAACATATGACACGACATAGTTAAGT
*
20457411 TGTTACATACCATGTACAAAAA
1 TGTTACACACCATGTACAAAAA
20457433 TATGTTACAT
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
45 23 0.40
46 34 0.60
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.27
Consensus pattern (45 bp):
TGTTACACACCATGTACAAAAACATATGACACGACATAGTTAAGT
Found at i:20457417 original size:115 final size:114
Alignment explanation
Indices: 20457216--20457492 Score: 329
Period size: 115 Copynumber: 2.4 Consensus size: 114
20457206 AATTACACGT
* * * * *
20457216 CATGTACAAAAACATGTTACACGTCATGGTTAGGTTGTTACACGCCGTATACAAAAACATGTGAT
1 CATGTACAAAAACATGTGACACGACATGGTTAGGTTGTTACACGCCATATACAAAAACATATGAC
* * ***
20457281 ACGTCATGGTTAGGTTGTTACACGTTATGTAAAAAAACATGTTACACAC
66 ACGCCATAGTTAGGTTGTTACACACCATGTAAAAAAACATGTTACACAC
* * * *
20457330 CATGTACAAAAACATATGACACGACATGGTTTAAGTTGTTACACGCTATGTACAAAAACATATGA
1 CATGTACAAAAACATGTGACACGACATGG-TTAGGTTGTTACACGCCATATACAAAAACATATGA
* * * * * **
20457395 CATGCCATAGTTCGGTTGTTACATACCATGTACAAAAATATGTTACATGC
65 CACGCCATAGTTAGGTTGTTACACACCATGTAAAAAAACATGTTACACAC
* * *
20457445 CATGTACAAAAACATGTGATATGACATGGTTAGGTTGTTACATGCCAT
1 CATGTACAAAAACATGTGACACGACATGGTTAGGTTGTTACACGCCAT
20457493 GGTTAGGTTG
Statistics
Matches: 135, Mismatches: 27, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
114 42 0.31
115 93 0.69
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (114 bp):
CATGTACAAAAACATGTGACACGACATGGTTAGGTTGTTACACGCCATATACAAAAACATATGAC
ACGCCATAGTTAGGTTGTTACACACCATGTAAAAAAACATGTTACACAC
Found at i:20457428 original size:45 final size:46
Alignment explanation
Indices: 20457320--20457447 Score: 150
Period size: 45 Copynumber: 2.8 Consensus size: 46
20457310 TAAAAAAACA
* * *
20457320 TGTTACACACCATGTACAAAAACATATGACACGACATGGTTTAAGT
1 TGTTACACACCATGTACAAAAACATATGACATGCCATAGTTTAAGT
* * **
20457366 TGTTACACGCTATGTACAAAAACATATGACATGCCATAG-TTCGGT
1 TGTTACACACCATGTACAAAAACATATGACATGCCATAGTTTAAGT
* * * *
20457411 TGTTACATACCATGTACAAAAATATGTTACATGCCAT
1 TGTTACACACCATGTACAAAAACATATGACATGCCAT
20457448 GTACAAAAAC
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
45 35 0.51
46 34 0.49
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.29
Consensus pattern (46 bp):
TGTTACACACCATGTACAAAAACATATGACATGCCATAGTTTAAGT
Found at i:20457439 original size:24 final size:24
Alignment explanation
Indices: 20457411--20457461 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
20457401 ATAGTTCGGT
*
20457411 TGTTACATACCATGTACAAAAATA
1 TGTTACATACCATGTACAAAAACA
*
20457435 TGTTACATGCCATGTACAAAAACA
1 TGTTACATACCATGTACAAAAACA
20457459 TGT
1 TGT
20457462 GATATGACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (24 bp):
TGTTACATACCATGTACAAAAACA
Found at i:20457451 original size:69 final size:69
Alignment explanation
Indices: 20457366--20457579 Score: 238
Period size: 69 Copynumber: 3.1 Consensus size: 69
20457356 TGGTTTAAGT
* * * *
20457366 TGTTACACGCTATGTACAAAAACATATGACATGCCATAGTTCGGTTGTTACATACCATGTACAAA
1 TGTTACACGCCATGTACAAAAACATGTGACATGCCATGGTTAGGTTGTTACATACCATGTACAAA
20457431 AATA
66 AATA
* * * * *
20457435 TGTTACATGCCATGTACAAAAACATGTGATATGACATGGTTAGGTTGTTACATGCCATGGT---T
1 TGTTACACGCCATGTACAAAAACATGTGACATGCCATGGTTAGGTTGTTACATACCAT-GTACAA
**
20457497 AGGT-
65 AAATA
* * * * *
20457501 TGCTACACGTCATGTATAAAAACATGTGACACGCCATGGTTAGGTTGTTACACACCATGTACAAA
1 TGTTACACGCCATGTACAAAAACATGTGACATGCCATGGTTAGGTTGTTACATACCATGTACAAA
20457566 AATA
66 AATA
*
20457570 TGTGACACGC
1 TGTTACACGC
20457580 TGTGGTTAGG
Statistics
Matches: 114, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
65 2 0.02
66 49 0.43
67 2 0.02
68 2 0.02
69 57 0.50
70 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (69 bp):
TGTTACACGCCATGTACAAAAACATGTGACATGCCATGGTTAGGTTGTTACATACCATGTACAAA
AATA
Found at i:20457472 original size:24 final size:24
Alignment explanation
Indices: 20457421--20457472 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
20457411 TGTTACATAC
* * *
20457421 CATGTACAAAAATATGTTACATGC
1 CATGTACAAAAACATGTGACATGA
*
20457445 CATGTACAAAAACATGTGATATGA
1 CATGTACAAAAACATGTGACATGA
20457469 CATG
1 CATG
20457473 GTTAGGTTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (24 bp):
CATGTACAAAAACATGTGACATGA
Found at i:20457514 original size:21 final size:21
Alignment explanation
Indices: 20457469--20457514 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
20457459 TGTGATATGA
* *
20457469 CATGGTTAGGTTGTTACATGC
1 CATGGTTAGGTTGCTACACGC
*
20457490 CATGGTTAGGTTGCTACACGT
1 CATGGTTAGGTTGCTACACGC
20457511 CATG
1 CATG
20457515 TATAAAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (21 bp):
CATGGTTAGGTTGCTACACGC
Found at i:20457537 original size:45 final size:45
Alignment explanation
Indices: 20457488--20457600 Score: 163
Period size: 45 Copynumber: 2.5 Consensus size: 45
20457478 GTTGTTACAT
* *
20457488 GCCATGGTTAGGTTGCTACACGTCATGTATAAAAACATGTGACAC
1 GCCATGGTTAGGTTGTTACACGTCATGTACAAAAACATGTGACAC
** *
20457533 GCCATGGTTAGGTTGTTACACACCATGTACAAAAATATGTGACAC
1 GCCATGGTTAGGTTGTTACACGTCATGTACAAAAACATGTGACAC
**
20457578 GCTGTGGTTAGGTTGTTACACGT
1 GCCATGGTTAGGTTGTTACACGT
20457601 TATATTGAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (45 bp):
GCCATGGTTAGGTTGTTACACGTCATGTACAAAAACATGTGACAC
Found at i:20457626 original size:30 final size:30
Alignment explanation
Indices: 20457590--20457671 Score: 112
Period size: 29 Copynumber: 2.8 Consensus size: 30
20457580 TGTGGTTAGG
*
20457590 TTGTTACACGTTATATTGAAAAAAATATTA
1 TTGTTACACGTCATATTGAAAAAAATATTA
*
20457620 TTGTTACACGCCATATTG-AAAAAATATTA
1 TTGTTACACGTCATATTGAAAAAAATATTA
* * *
20457649 TTATTACATGTCATGTTGAAAAA
1 TTGTTACACGTCATATTGAAAAA
20457672 CATTTTGTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 25 0.56
30 20 0.44
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (30 bp):
TTGTTACACGTCATATTGAAAAAAATATTA
Found at i:20457682 original size:27 final size:29
Alignment explanation
Indices: 20457590--20457684 Score: 104
Period size: 29 Copynumber: 3.3 Consensus size: 29
20457580 TGTGGTTAGG
**
20457590 TTGTTACACGTTATATTGAAAAAAATATTA
1 TTGTTACACGCCATATTG-AAAAAATATTA
20457620 TTGTTACACGCCATATTGAAAAAATATTA
1 TTGTTACACGCCATATTGAAAAAATATTA
* * * * *
20457649 TTATTACATGTCATGTTG-AAAAACATT-
1 TTGTTACACGCCATATTGAAAAAATATTA
20457676 TTGTTACAC
1 TTGTTACAC
20457685 TTTAATACCT
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
27 7 0.12
28 8 0.14
29 25 0.45
30 16 0.29
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.39
Consensus pattern (29 bp):
TTGTTACACGCCATATTGAAAAAATATTA
Found at i:20462092 original size:13 final size:13
Alignment explanation
Indices: 20462074--20462098 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20462064 TCTCTCCTTC
20462074 TTCTTCTTTCTTT
1 TTCTTCTTTCTTT
20462087 TTCTTCTTTCTT
1 TTCTTCTTTCTT
20462099 CCCTCTCATT
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:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTCTTCTTTCTTT
Found at i:20462153 original size:12 final size:13
Alignment explanation
Indices: 20462138--20462170 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
20462128 CTTTCTCTCC
20462138 TTCTTTTTC-TTT
1 TTCTTTTTCTTTT
20462150 TTCTTTTTCTTTT
1 TTCTTTTTCTTTT
20462163 TTCTTTTT
1 TTCTTTTT
20462171 TCTTCCCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTCTTTTTCTTTT
Found at i:20462157 original size:7 final size:7
Alignment explanation
Indices: 20462141--20462174 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
20462131 TCTCTCCTTC
20462141 TTTTTC-
1 TTTTTCT
20462147 TTTTTC-
1 TTTTTCT
20462153 TTTTTCT
1 TTTTTCT
20462160 TTTTTCT
1 TTTTTCT
20462167 TTTTTCT
1 TTTTTCT
20462174 T
1 T
20462175 CCCTCTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 12 0.44
7 15 0.56
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTCT
Found at i:20462169 original size:6 final size:6
Alignment explanation
Indices: 20462138--20462170 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
20462128 CTTTCTCTCC
20462138 TTCTTT TTCTTT TTCTTT TTCTTTT TTCTTT TT
1 TTCTTT TTCTTT TTCTTT TTC-TTT TTCTTT TT
20462171 TCTTCCCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTCTTT
Found at i:20462227 original size:12 final size:12
Alignment explanation
Indices: 20462210--20462246 Score: 53
Period size: 10 Copynumber: 3.3 Consensus size: 12
20462200 GTGCTCCCCC
20462210 TCTCTTTCTTCT
1 TCTCTTTCTTCT
20462222 TCTCTTTC-TCT
1 TCTCTTTCTTCT
20462233 T-TCTTT-TTCT
1 TCTCTTTCTTCT
20462243 TCTC
1 TCTC
20462247 CCTGAGATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.39
11 6 0.26
12 8 0.35
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (12 bp):
TCTCTTTCTTCT
Found at i:20464476 original size:12 final size:13
Alignment explanation
Indices: 20464458--20464503 Score: 60
Period size: 12 Copynumber: 3.7 Consensus size: 13
20464448 CCATCTCTTC
20464458 CTTCTCTTTCCTT
1 CTTCTCTTTCCTT
20464471 -TTCTCTTT-CTT
1 CTTCTCTTTCCTT
*
20464482 CTTCTCTTTCTTT
1 CTTCTCTTTCCTT
*
20464495 CTTGTCTTT
1 CTTCTCTTT
20464504 TCTCCCTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 3 0.10
12 16 0.55
13 10 0.34
ACGTcount: A:0.00, C:0.30, G:0.02, T:0.67
Consensus pattern (13 bp):
CTTCTCTTTCCTT
Found at i:20479441 original size:86 final size:86
Alignment explanation
Indices: 20479289--20480119 Score: 997
Period size: 86 Copynumber: 9.7 Consensus size: 86
20479279 AAAACAAAGT
* * * * *
20479289 ACCACAATTGGCCCTTGTCGTGTCACCCCACAAAACTGCAACAAGTCAGCATGTCATGCCATAAG
1 ACCACAATTGGCCCATGCCGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACGCCATAAG
* * *
20479354 TCTACATTCACTCAACGTCTC
66 TCTGCATTCACTCAACATGTC
* * * * * * * * * *
20479375 ACTACAATTGGCCCGTGCCATGTCACCCCACAAGATTGCAACAAGTTAACATGTCGCGCTAGAAG
1 ACCACAATTGGCCCATGCCGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACGCCATAAG
* *
20479440 TCTGCATGCACTCAGA-GTGTC
66 TCTGCATTCACTCA-ACATGTC
* * * *
20479461 ACCACAATTGGCCCATGCCGTGTCACCCCATAAGACTACAACAAGTCAGTGTGTCACACCATAAG
1 ACCACAATTGGCCCATGCCGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACGCCATAAG
*
20479526 TCTGCATTCACTCAGCATGTC
66 TCTGCATTCACTCAACATGTC
* * * * * *
20479547 AACACAATTGGGCCGTGCTGTGTCACCCCACAAGACTAG-AACAAGTCAGCGTGTCATGTCATAA
1 ACCACAATTGGCCCATGCCGTGTCACCCCACAAGACT-GCAACAAGTCAGCGTGTCACGCCATAA
20479611 GTCTGCATTCACTCAACATGTC
65 GTCTGCATTCACTCAACATGTC
* * * *
20479633 ACCACAATTGGCCCGTGCCATGTCACCCCATAAGACTGCAACAAGTCAGCGTGTCACGTCATAAG
1 ACCACAATTGGCCCATGCCGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACGCCATAAG
20479698 TCTGCATTCACTCAACATGTC
66 TCTGCATTCACTCAACATGTC
* * * **
20479719 ACCACAATTGGCCCGTGCAGTGTCACCCCGCAAGACTGCAACAAGTCAGCGTGTCACATCATAAG
1 ACCACAATTGGCCCATGCCGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACGCCATAAG
*
20479784 TCTTGCATTCACTCAGCATGTC
66 TC-TGCATTCACTCAACATGTC
*
20479806 ACCACAATTGGCCCATGCCGTGTCACCCCACAATACTGCAACAAGTCAGCGTGTCACGCCATAAG
1 ACCACAATTGGCCCATGCCGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACGCCATAAG
*
20479871 TCTGCATTCACTCAA-AGTGCC
66 TCTGCATTCACTCAACA-TGTC
* *** * * * * * *
20479892 A-CACAATTAGCCCATGCCACATCACCCCATAATACTGCAACTAGTTAACATGTCACGCCATAAG
1 ACCACAATTGGCCCATGCCGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACGCCATAAG
* *
20479956 TCTACATTCACTCAGCATGTC
66 TCTGCATTCACTCAACATGTC
* * *
20479977 ACCACAGTTGGCCCATGTCGTGTCACCCCACAATACTGCAACAAGTCAGCGTGTCACGCCATAAG
1 ACCACAATTGGCCCATGCCGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACGCCATAAG
* * *
20480042 TCCGCATTCACTTAGCATGTC
66 TCTGCATTCACTCAACATGTC
* * *
20480063 ACCACAATTTGGGCCC-TACCGTGTCACCTCAAAAGACTGCAACAAGTCAGCGTGTCA
1 ACCACAA-TT-GGCCCATGCCGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCA
20480120 AAATGGTGTT
Statistics
Matches: 640, Mismatches: 95, Indels: 19
0.85 0.13 0.03
Matches are distributed among these distances:
85 73 0.11
86 444 0.69
87 118 0.18
88 5 0.01
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (86 bp):
ACCACAATTGGCCCATGCCGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACGCCATAAG
TCTGCATTCACTCAACATGTC
Found at i:20483952 original size:31 final size:31
Alignment explanation
Indices: 20483899--20484110 Score: 327
Period size: 31 Copynumber: 6.8 Consensus size: 31
20483889 TTTGTCAGTC
* *
20483899 ATGTTGTTACATGCCATGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* *
20483930 ATG-TGATAACACGCAATGCATATAACGTACA
1 ATGTTG-TAACACGCCATGCATATAACGTAAA
*
20483961 ATGTTGTAACACGCCATGCATATAATGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
*
20483992 ATGTTGTAACAAGCCATGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
*
20484023 ATGTTGTAACACACCATGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* *
20484054 ATGTTGTAACACGCCATACATATAATGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
20484085 ATGTTGTAACACGCCATGCATATAAC
1 ATGTTGTAACACGCCATGCATATAAC
20484111 CAACGTCGTG
Statistics
Matches: 163, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
30 2 0.01
31 159 0.98
32 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (31 bp):
ATGTTGTAACACGCCATGCATATAACGTAAA
Found at i:20489745 original size:83 final size:83
Alignment explanation
Indices: 20489653--20489857 Score: 374
Period size: 83 Copynumber: 2.5 Consensus size: 83
20489643 ATTTCATTAT
*
20489653 CTAAAAATCAGGTTCAATTTTCTCTAATTCATGTTGTAAGCATTAATGTAAAAAATATTTAATAA
1 CTAAAAATCAGGTTCAATTTTCTCTAATTCATGTTGTAAACATTAATGTAAAAAATATTTAATAA
* *
20489718 AGAATATAAACTGAATAA
66 AGAAAATAAACTCAATAA
*
20489736 CTAAAAATCAGGTTCAATTTTCTCTAATTCATGTTGTAAATATTAATGTAAAAAATATTTAATAA
1 CTAAAAATCAGGTTCAATTTTCTCTAATTCATGTTGTAAACATTAATGTAAAAAATATTTAATAA
20489801 AGAAAATAAACTCAATAA
66 AGAAAATAAACTCAATAA
20489819 CTAAAAATCAGGTTCAATTTTCTCTAATTCATGTTGTAA
1 CTAAAAATCAGGTTCAATTTTCTCTAATTCATGTTGTAA
20489858 TAGACATGAG
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 118 1.00
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (83 bp):
CTAAAAATCAGGTTCAATTTTCTCTAATTCATGTTGTAAACATTAATGTAAAAAATATTTAATAA
AGAAAATAAACTCAATAA
Found at i:20489897 original size:15 final size:14
Alignment explanation
Indices: 20489873--20489903 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
20489863 ATGAGACAAG
20489873 AATTAATTTTCTCT
1 AATTAATTTTCTCT
20489887 AATTCAATTTTCTCT
1 AATT-AATTTTCTCT
20489902 AA
1 AA
20489904 ATAAGCTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (14 bp):
AATTAATTTTCTCT
Found at i:20498430 original size:2 final size:2
Alignment explanation
Indices: 20498419--20498467 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
20498409 NNNNNNNNNN
*
20498419 AT AT -T AT AT AT A- AT AT AT AT AT AT -T AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20498458 AT AT AT AT AT
1 AT AT AT AT AT
20498468 TAATTTTTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
1 3 0.07
2 39 0.93
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:20500095 original size:15 final size:16
Alignment explanation
Indices: 20500075--20500104 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20500065 GGAATACAAC
20500075 AGAAACTGA-AGAAAA
1 AGAAACTGAGAGAAAA
20500090 AGAAACTGAGAGAAA
1 AGAAACTGAGAGAAA
20500105 CTCCAGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.63, C:0.07, G:0.23, T:0.07
Consensus pattern (16 bp):
AGAAACTGAGAGAAAA
Found at i:20517245 original size:23 final size:22
Alignment explanation
Indices: 20517211--20517253 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
20517201 AATAGTAGCG
20517211 TTAAAAAAATTAA-ATTTTTTA
1 TTAAAAAAATTAATATTTTTTA
20517232 TTAAATAATAATTAATATTTTT
1 TTAAA-AA-AATTAATATTTTT
20517254 AAAAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 2 0.11
23 6 0.32
24 6 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAAAAAAATTAATATTTTTTA
Found at i:20519017 original size:26 final size:25
Alignment explanation
Indices: 20518987--20519066 Score: 88
Period size: 26 Copynumber: 3.1 Consensus size: 25
20518977 TTTTTTCTGA
*
20518987 TTATTTTGCTTTAAGTAGTACTTCAC
1 TTATTTTGCTTGAAGTAGT-CTTCAC
*
20519013 TTATTTTGCTTGAAGTAGCGCTTCAC
1 TTATTTTGCTTGAAGTAG-TCTTCAC
* * *
20519039 TTGTTCTGCGTGAAGTAGCTCTTCAC
1 TTATTTTGCTTGAAGTAG-TCTTCAC
20519065 TT
1 TT
20519067 GTTCTAATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.45
Consensus pattern (25 bp):
TTATTTTGCTTGAAGTAGTCTTCAC
Found at i:20519067 original size:26 final size:26
Alignment explanation
Indices: 20518999--20519071 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
20518989 ATTTTGCTTT
* * *
20518999 AAGTAG-TACTTCACTTATTTTGCTTG
1 AAGTAGCT-CTTCACTTGTTCTGCGTG
*
20519025 AAGTAGCGCTTCACTTGTTCTGCGTG
1 AAGTAGCTCTTCACTTGTTCTGCGTG
20519051 AAGTAGCTCTTCACTTGTTCT
1 AAGTAGCTCTTCACTTGTTCT
20519072 AATTATTCTA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (26 bp):
AAGTAGCTCTTCACTTGTTCTGCGTG
Found at i:20519454 original size:41 final size:41
Alignment explanation
Indices: 20519397--20519530 Score: 144
Period size: 41 Copynumber: 3.2 Consensus size: 41
20519387 TTTTTTTATC
*
20519397 AATATCTTTTGTAATATATGATTGATTATGCAATAATATTT
1 AATATCTTTTGTAATATTTGATTGATTATGCAATAATATTT
* * **** *
20519438 AATATCTTTCGTAATATTTGATTGCATTTTTTTTTTAAT-TTC
1 AATATCTTTTGTAATATTTGATTG-A-TTATGCAATAATATTT
** *
20519480 AATATCTTTTGTAATATTTTTTTGATTATGGAATAATATTT
1 AATATCTTTTGTAATATTTGATTGATTATGCAATAATATTT
20519521 AATATCTTTT
1 AATATCTTTT
20519531 TCATAAAAAC
Statistics
Matches: 73, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
40 7 0.10
41 35 0.48
42 24 0.33
43 7 0.10
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.55
Consensus pattern (41 bp):
AATATCTTTTGTAATATTTGATTGATTATGCAATAATATTT
Found at i:20522505 original size:15 final size:15
Alignment explanation
Indices: 20522485--20522530 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
20522475 AAGTAAGTTC
20522485 ATTTTTTTTTATTAT
1 ATTTTTTTTTATTAT
20522500 ATTTTTTTTCTATATAT
1 ATTTTTTTT-TAT-TAT
*
20522517 ATATATTTTTTATT
1 AT-TTTTTTTTATT
20522531 TCCTCATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 9 0.33
16 4 0.15
17 8 0.30
18 6 0.22
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (15 bp):
ATTTTTTTTTATTAT
Found at i:20522519 original size:19 final size:17
Alignment explanation
Indices: 20522485--20522527 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 17
20522475 AAGTAAGTTC
20522485 ATTTTTTTTTATTATAT
1 ATTTTTTTTTATTATAT
20522502 -TTTTTTTCTATATATATAT
1 ATTTTTTT-T-TAT-TATAT
20522521 ATTTTTT
1 ATTTTTT
20522528 ATTTCCTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 7 0.32
17 1 0.05
18 3 0.14
19 5 0.23
20 6 0.27
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTTTTTTTATTATAT
Found at i:20530924 original size:26 final size:25
Alignment explanation
Indices: 20530906--20530978 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 25
20530896 ATTTTGCTTT
20530906 AAGTAGTACTTCACTTATTCTGCGTG
1 AAGTAGT-CTTCACTTATTCTGCGTG
* *
20530932 AAGTAGCGCTTCACTTGTTCTGCGTG
1 AAGTAG-TCTTCACTTATTCTGCGTG
*
20530958 AAGTAGCTCTTCACTTGTTCT
1 AAGTAG-TCTTCACTTATTCT
20530979 AATTATTCTA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (25 bp):
AAGTAGTCTTCACTTATTCTGCGTG
Found at i:20534578 original size:3 final size:3
Alignment explanation
Indices: 20534570--20534594 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
20534560 AAATGAACTA
20534570 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
20534595 GAGAGAGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:20537830 original size:18 final size:18
Alignment explanation
Indices: 20537809--20537843 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20537799 AATAAAATTG
20537809 AAATAAAAAAATAAATAT
1 AAATAAAAAAATAAATAT
* *
20537827 AAATAATAATATAAATA
1 AAATAAAAAAATAAATA
20537844 AAAAAATTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATAAAAAAATAAATAT
Found at i:20540410 original size:33 final size:33
Alignment explanation
Indices: 20540366--20540430 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
20540356 TATGTCACTT
* *
20540366 CATCATTAATTAAAATATATCAACATATCACAC
1 CATCATCAATTAAAATATATCAAAATATCACAC
** *
20540399 CATCATCAATTACGATATATTAAAATATCACA
1 CATCATCAATTAAAATATATCAAAATATCACA
20540431 TCAATTTCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.31
Consensus pattern (33 bp):
CATCATCAATTAAAATATATCAAAATATCACAC
Found at i:20542122 original size:21 final size:21
Alignment explanation
Indices: 20542087--20542138 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
20542077 ACAGCATCAG
20542087 AGAA-AGAAATCGAGGAAGAA
1 AGAACAGAAATCGAGGAAGAA
* * * *
20542107 AGGACGGAAATTGAGGAGGAA
1 AGAACAGAAATCGAGGAAGAA
20542128 AGAACAGAAAT
1 AGAACAGAAAT
20542139 AGAAGAGGAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.54, C:0.06, G:0.33, T:0.08
Consensus pattern (21 bp):
AGAACAGAAATCGAGGAAGAA
Found at i:20544785 original size:30 final size:30
Alignment explanation
Indices: 20544724--20544787 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
20544714 AATCAAATTT
* *
20544724 TTATATTTTTATTTTAAACTAAATAAGCTC
1 TTATATTTTTATTTTAAACTAAACAAACTC
*
20544754 TTATATTTTTATTTTGAA-TCAAACAAACTC
1 TTATATTTTTATTTTAAACT-AAACAAACTC
20544784 TTAT
1 TTAT
20544788 CATTAATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 1 0.03
30 29 0.97
ACGTcount: A:0.36, C:0.11, G:0.03, T:0.50
Consensus pattern (30 bp):
TTATATTTTTATTTTAAACTAAACAAACTC
Found at i:20545205 original size:3 final size:3
Alignment explanation
Indices: 20545199--20545232 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
20545189 ATAATAATAA
* *
20545199 TAG TAG TAG TAA TAG TAG TAG TAG TAG TAA TAG T
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG T
20545233 CATTAAGCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.35
Consensus pattern (3 bp):
TAG
Found at i:20545211 original size:12 final size:12
Alignment explanation
Indices: 20545196--20545232 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
20545186 ATAATAATAA
20545196 TAATAGTAGTAG
1 TAATAGTAGTAG
20545208 TAATAGTAGTAG
1 TAATAGTAGTAG
* *
20545220 TAGTAGTAATAG
1 TAATAGTAGTAG
20545232 T
1 T
20545233 CATTAAGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (12 bp):
TAATAGTAGTAG
Found at i:20550090 original size:3 final size:3
Alignment explanation
Indices: 20550082--20550106 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
20550072 CTATATAACT
20550082 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
20550107 CTTTTCGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:20554641 original size:23 final size:25
Alignment explanation
Indices: 20554597--20554643 Score: 71
Period size: 23 Copynumber: 1.9 Consensus size: 25
20554587 GAAAGAAAGC
20554597 CTAACTAATTCTATACTTAACTAACA
1 CTAACTAA-TCTATACTTAACTAACA
20554623 CTAACTAA-CTA-ACTTAACTAA
1 CTAACTAATCTATACTTAACTAA
20554644 TATTTAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.48
24 3 0.14
26 8 0.38
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (25 bp):
CTAACTAATCTATACTTAACTAACA
Found at i:20571318 original size:167 final size:167
Alignment explanation
Indices: 20571020--20571511 Score: 542
Period size: 167 Copynumber: 2.9 Consensus size: 167
20571010 AACTTGTGCT
** * * * *
20571020 AGATAACCTATATATAAAGGCAATCCAGATCAAGAGGATTGAGATCTAAGAAT-GGAATCTCAAC
1 AGATAACCTATATGCAAAGGCAATCAAGATTAAGAGGATTGAGATCCAAGGATAGG-ATCTCAAC
* * * * * * *
20571084 TCCCTTACTTCTCTTATTATTATGTAA--CAAAAAGGAGCAAACCCTTTGTTGAGTGATGGAAAC
65 TCCCTCACTTCTCATATTATAATATAATTC-AAAAGGAACAATCCCTTTCTTGAGTGATGGAAAC
* *
20571147 ACACAAGGTATATATTTGCTTCCTATTGCAGTACGTTAG
129 ACACAAGGTATATATTTGCTTCCCATTGCAGTACGTTAA
* * * *
20571186 AGATAAACTATATGCAATGGCAATCAAGATTAAGAGGATTGATATCCAAGGATAGGATCTTAACT
1 AGATAACCTATATGCAAAGGCAATCAAGATTAAGAGGATTGAGATCCAAGGATAGGATCTCAACT
* * *
20571251 CCCTCACTTTTCATATTATAATATAATTCAAAAGGAACAATCCTTTTCTTGAGTGGTGGAAACAC
66 CCCTCACTTCTCATATTATAATATAATTCAAAAGGAACAATCCCTTTCTTGAGTGATGGAAACAC
* * * * *
20571316 ACAAAGTATATAGTTACTTCCCATTGCATTATGTTAA
131 ACAAGGTATATATTTGCTTCCCATTGCAGTACGTTAA
* * * *
20571353 AGATAACCTATATGCAAAGGCAATCAATATTAAGAGGATTGAGATCCTAGGACAGAATCTCAACT
1 AGATAACCTATATGCAAAGGCAATCAAGATTAAGAGGATTGAGATCCAAGGATAGGATCTCAACT
* ** * * * * * *
20571418 CCC-CTACTTCTCATGTTATTCGTATTTATTCAAAAGGAACACTCCCATCCTTCAGTGTTGGAAA
66 CCCTC-ACTTCTCATATTA-TAATA-TAATTCAAAAGGAACAATCCCTTTCTTGAGTGATGGAAA
*
20571482 CACACAGGGTATATATTTGCTTCCCATTGC
128 CACACAAGGTATATATTTGCTTCCCATTGC
20571512 GGCGAGTTAA
Statistics
Matches: 270, Mismatches: 50, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
166 74 0.27
167 134 0.50
168 4 0.01
169 58 0.21
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (167 bp):
AGATAACCTATATGCAAAGGCAATCAAGATTAAGAGGATTGAGATCCAAGGATAGGATCTCAACT
CCCTCACTTCTCATATTATAATATAATTCAAAAGGAACAATCCCTTTCTTGAGTGATGGAAACAC
ACAAGGTATATATTTGCTTCCCATTGCAGTACGTTAA
Found at i:20574707 original size:169 final size:167
Alignment explanation
Indices: 20574219--20574734 Score: 501
Period size: 167 Copynumber: 3.1 Consensus size: 167
20574209 AACCTGTGCT
* ** * * *
20574219 AGATAAACTTTATATAAAAGCAATCAAGATTAAGAGGATTGAGATCTAA-GAATGGAATCTCAAC
1 AGATAAACTATATGCAAAGGCAATCAACATTAAGAGGATTGAGATCCAAGGAA--GAATCTCAAC
* * ** *
20574283 TCCCTTACTTCTC--TTATTATTATGCA-TCAAAAAGGAACAAACCATTTAC-TGAGTGATGGAA
64 TCCCCTACTTCTCATTTATTAATATTAATTC-AAAAGGAACAATCC-TTTACTTGAGTGATGGAA
** * ** *
20574344 ACACGTAAGGTGTATATTTGCTTCTTATTACGATACGTTAG
127 ACACACAAGGTATATATTTGCTTCCCATTGCGATACGTTAG
* * * * * * *
20574385 AGATAAACTATATGCAATGACATTCAACATTTAGAGGATTGCGATCCAAGGAAGGAATCTTAGCT
1 AGATAAACTATATGCAAAGGCAATCAACATTAAGAGGATTGAGATCCAAGGAA-GAATCTCAACT
* * *
20574450 -CCCTCACTTCTGATATTA-TAATA-TAATTCAAAAGGAACAATCCTTTTCTTGAGTGGTGGAAA
65 CCCCT-ACTTCTCAT-TTATTAATATTAATTCAAAAGGAACAATCCTTTACTTGAGTGATGGAAA
*
20574512 CACACAAAGTATATATTTGCTTCCCATTGC-ATTACGTTAG
128 CACACAAGGTATATATTTGCTTCCCATTGCGA-TACGTTAG
* *
20574552 AGATAACCTATATGCAAAGGCAATCAATATTAAGAGGATTGAGATCCAAGGACAGAATCTCAACT
1 AGATAAACTATATGCAAAGGCAATCAACATTAAGAGGATTGAGATCCAAGGA-AGAATCTCAACT
** * * * * *
20574617 CCCCTACTTCTCATGTTATTCGTATTTATTCAGAAGGAACAATCCCTTCCTTCAGTGATGGAAAC
65 CCCCTACTTCTCAT-TTATTAATATTAATTCAAAAGGAACAATCCTTTACTTGAGTGATGGAAAC
* ** *
20574682 ACACAAGGTATATATTTACTTCCCATTGCGGCAAGTTAG
129 ACACAAGGTATATATTTGCTTCCCATTGCGATACGTTAG
*
20574721 AGATAAACTCTATG
1 AGATAAACTATATG
20574735 TAAAAATAAG
Statistics
Matches: 283, Mismatches: 54, Indels: 23
0.79 0.15 0.06
Matches are distributed among these distances:
165 3 0.01
166 59 0.21
167 125 0.44
168 14 0.05
169 82 0.29
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (167 bp):
AGATAAACTATATGCAAAGGCAATCAACATTAAGAGGATTGAGATCCAAGGAAGAATCTCAACTC
CCCTACTTCTCATTTATTAATATTAATTCAAAAGGAACAATCCTTTACTTGAGTGATGGAAACAC
ACAAGGTATATATTTGCTTCCCATTGCGATACGTTAG
Found at i:20576926 original size:102 final size:102
Alignment explanation
Indices: 20576750--20577155 Score: 767
Period size: 102 Copynumber: 4.0 Consensus size: 102
20576740 ATGATAATCC
* *
20576750 ACTTTAAATACCCCTGTATCATCCCTACTTCCCAGCAGCCCGCTTCCCAAAAGAAGCCCTTTCAT
1 ACTTTAAATACCCCTGTATCATCCCTACTTCCCAGCAGTCCGCTTCCCAAACGAAGCCCTTTCAT
20576815 TCCGCTGCTTGCATGTGTTCACTTTCTCGCCTTGTTT
66 TCCGCTGCTTGCATGTGTTCACTTTCTCGCCTTGTTT
*
20576852 ACTTTAAATACCCCTGTATCATCCCTACTTCCTAGCAGTCCGCTTCCCAAACGAAGCCCTTTCAT
1 ACTTTAAATACCCCTGTATCATCCCTACTTCCCAGCAGTCCGCTTCCCAAACGAAGCCCTTTCAT
20576917 TCCGCTGCTTGCATGTGTTCACTTTCTCGCCTTGTTT
66 TCCGCTGCTTGCATGTGTTCACTTTCTCGCCTTGTTT
*
20576954 ACTTTAAATACCCCTGTATCATCCCTACTTCCTAGCAGTCCGCTTCCCAAACGAAGCCCTTTCAT
1 ACTTTAAATACCCCTGTATCATCCCTACTTCCCAGCAGTCCGCTTCCCAAACGAAGCCCTTTCAT
*
20577019 TCCGCTGCTTGCATGTGTTCACTTTCTAGCCTTGTTT
66 TCCGCTGCTTGCATGTGTTCACTTTCTCGCCTTGTTT
20577056 ACTTTAAATACCCCTGTATCATCCCTACTTCCCAGCAGTCCGCTTCCCAAACGAAGCCCTTTCAT
1 ACTTTAAATACCCCTGTATCATCCCTACTTCCCAGCAGTCCGCTTCCCAAACGAAGCCCTTTCAT
20577121 TCCGCTGCTTGCATGTGTTCACTTTCTCGCCTTGT
66 TCCGCTGCTTGCATGTGTTCACTTTCTCGCCTTGT
20577156 GGTCTTTTCA
Statistics
Matches: 298, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 298 1.00
ACGTcount: A:0.18, C:0.35, G:0.13, T:0.34
Consensus pattern (102 bp):
ACTTTAAATACCCCTGTATCATCCCTACTTCCCAGCAGTCCGCTTCCCAAACGAAGCCCTTTCAT
TCCGCTGCTTGCATGTGTTCACTTTCTCGCCTTGTTT
Found at i:20590066 original size:2 final size:2
Alignment explanation
Indices: 20590059--20590096 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
20590049 TGAAATGTTA
20590059 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20590097 CATTAGTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20599768 original size:21 final size:21
Alignment explanation
Indices: 20599743--20599784 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20599733 TTATTAATCC
20599743 AAACGAG-ATACAACACAACTT
1 AAACGAGTA-ACAACACAACTT
*
20599764 AAACGAGTAACAACATAACTT
1 AAACGAGTAACAACACAACTT
20599785 TCCACCAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.52, C:0.21, G:0.10, T:0.17
Consensus pattern (21 bp):
AAACGAGTAACAACACAACTT
Found at i:20614688 original size:23 final size:23
Alignment explanation
Indices: 20614662--20614707 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
20614652 ATACAATAAC
*
20614662 CTTATCCTAATATAATTAGGAAT
1 CTTATCCTAATAGAATTAGGAAT
20614685 CTTATCCTAATAGAATTAGGAAT
1 CTTATCCTAATAGAATTAGGAAT
20614708 TGTTATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (23 bp):
CTTATCCTAATAGAATTAGGAAT
Found at i:20633785 original size:16 final size:16
Alignment explanation
Indices: 20633766--20633798 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
20633756 ATATATATAG
20633766 ATATATATATTTCTCT
1 ATATATATATTTCTCT
20633782 ATATATATATTTCTCT
1 ATATATATATTTCTCT
20633798 A
1 A
20633799 CATAACGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (16 bp):
ATATATATATTTCTCT
Found at i:20651784 original size:6 final size:6
Alignment explanation
Indices: 20651775--20651836 Score: 79
Period size: 6 Copynumber: 10.3 Consensus size: 6
20651765 TGACGTCGAC
* * *
20651775 GAGGAA GAGGAT GATGAT GAGGAT GAGGAT GAGGAT GAGGAT GATGAT
1 GAGGAT GAGGAT GAGGAT GAGGAT GAGGAT GAGGAT GAGGAT GAGGAT
* *
20651823 GATGAT GATGAT GA
1 GAGGAT GAGGAT GA
20651837 ATATGATGAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.35, C:0.00, G:0.44, T:0.21
Consensus pattern (6 bp):
GAGGAT
Found at i:20651792 original size:3 final size:3
Alignment explanation
Indices: 20651784--20651845 Score: 72
Period size: 3 Copynumber: 20.7 Consensus size: 3
20651774 CGAGGAAGAG
* * * *
20651784 GAT GAT GAT GAG GAT GAG GAT GAG GAT GAG GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
20651832 GAT GAAT -AT GAT GA
1 GAT G-AT GAT GAT GA
20651846 GAACCAAGAG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.92
4 2 0.04
ACGTcount: A:0.35, C:0.00, G:0.39, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:20651802 original size:18 final size:18
Alignment explanation
Indices: 20651775--20651836 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
20651765 TGACGTCGAC
*
20651775 GAGGAAGAGGATGATGAT
1 GAGGATGAGGATGATGAT
*
20651793 GAGGATGAGGATGAGGAT
1 GAGGATGAGGATGATGAT
*
20651811 GAGGATGATGATGATGAT
1 GAGGATGAGGATGATGAT
*
20651829 GATGATGA
1 GAGGATGA
20651837 ATATGATGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.35, C:0.00, G:0.44, T:0.21
Consensus pattern (18 bp):
GAGGATGAGGATGATGAT
Found at i:20657063 original size:29 final size:29
Alignment explanation
Indices: 20657008--20657063 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
20656998 ATATTATAAT
*
20657008 TAAAAATTTTATAAATACAAATCAAAATA
1 TAAAAATTTTATAAATACAAATAAAAATA
* *
20657037 TAAAAATTTATTTAAATA-TAATAAAAA
1 TAAAAATTT-TATAAATACAAATAAAAA
20657064 AAATTAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 16 0.70
30 7 0.30
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (29 bp):
TAAAAATTTTATAAATACAAATAAAAATA
Found at i:20666287 original size:2 final size:2
Alignment explanation
Indices: 20666280--20666337 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
20666270 TCTGGTTGAA
20666280 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20666322 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
20666338 TTTATTTCTC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20675654 original size:22 final size:25
Alignment explanation
Indices: 20675629--20675675 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
20675619 ATTTGGTGCA
20675629 TTTTAT-AT-TAAA-ATTTAATTTT
1 TTTTATAATATAAACATTTAATTTT
*
20675651 TTTTATAATATAAACGTTTAATTTT
1 TTTTATAATATAAACATTTAATTTT
20675676 GTAAAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 2 0.10
24 4 0.19
25 9 0.43
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTTATAATATAAACATTTAATTTT
Found at i:20683048 original size:28 final size:29
Alignment explanation
Indices: 20683007--20683066 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
20682997 GTCTATGGGC
*
20683007 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
20683035 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
20683065 AA
1 AA
20683067 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:20709524 original size:36 final size:36
Alignment explanation
Indices: 20709484--20709553 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
20709474 TCACGGCAAT
** *
20709484 GAGGATCATCTGCTGCACTCTGTGCATTACCATTAG
1 GAGGATCATCCACCGCACTCTGTGCATTACCATTAG
* *
20709520 GAGGATCATCCACCGCATTCTGTGCATTATCATT
1 GAGGATCATCCACCGCACTCTGTGCATTACCATT
20709554 GTCATGAGGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (36 bp):
GAGGATCATCCACCGCACTCTGTGCATTACCATTAG
Found at i:20716334 original size:35 final size:34
Alignment explanation
Indices: 20716295--20716426 Score: 122
Period size: 35 Copynumber: 3.8 Consensus size: 34
20716285 CTAGAATGAA
*
20716295 TGAAGTACTATTTTATACAGAATAATTGAAATAAG
1 TGAAGTACTATTTTATACAGAATAATT-AAACAAG
* * * *
20716330 TGAAGCACTATTTTATGCAAAATAATTAGAGCAAG
1 TGAAGTACTATTTTATACAGAATAATTA-AACAAG
*
20716365 T-AGAGTACAATTTTATACAGAATAATTAATACAAG
1 TGA-AGTACTATTTTATACAGAATAATTAA-ACAAG
** **
20716400 TAGAACAACTATTTCGTACAGAATAAT
1 T-GAAGTACTATTTTATACAGAATAAT
20716427 CAATTCGCAT
Statistics
Matches: 77, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
34 3 0.04
35 55 0.71
36 18 0.23
37 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (34 bp):
TGAAGTACTATTTTATACAGAATAATTAAACAAG
Found at i:20716632 original size:29 final size:29
Alignment explanation
Indices: 20716590--20716662 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
20716580 TCTTACCATG
* *
20716590 TTCTTTTGTACTTGTTTATGTACACTTTT
1 TTCTCTTGTACTTGTTCATGTACACTTTT
* *
20716619 TTTTCTTGTACTTGTTCATGTATACTTTT
1 TTCTCTTGTACTTGTTCATGTACACTTTT
*
20716648 TTCTCTT-AACTTGTT
1 TTCTCTTGTACTTGTT
20716663 ATCCTATAGC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
28 7 0.18
29 31 0.82
ACGTcount: A:0.14, C:0.15, G:0.10, T:0.62
Consensus pattern (29 bp):
TTCTCTTGTACTTGTTCATGTACACTTTT
Found at i:20716670 original size:28 final size:29
Alignment explanation
Indices: 20716590--20716676 Score: 70
Period size: 29 Copynumber: 3.0 Consensus size: 29
20716580 TCTTACCATG
* * * * *
20716590 TTCTTTTGTACTTGTTTATGTACACTTTT
1 TTCTCTTGAACTTGTTCATCTATACTTTT
* * *
20716619 TTTTCTTGTACTTGTTCATGTATACTTTT
1 TTCTCTTGAACTTGTTCATCTATACTTTT
20716648 TTCTCTT-AACTTGTT-ATCCTATAGCTTTT
1 TTCTCTTGAACTTGTTCAT-CTATA-CTTTT
20716677 CATATATACC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
27 2 0.04
28 11 0.22
29 36 0.73
ACGTcount: A:0.15, C:0.16, G:0.09, T:0.60
Consensus pattern (29 bp):
TTCTCTTGAACTTGTTCATCTATACTTTT
Found at i:20722856 original size:129 final size:129
Alignment explanation
Indices: 20722626--20722880 Score: 456
Period size: 129 Copynumber: 2.0 Consensus size: 129
20722616 ATATATATTA
* *
20722626 GTTATATTATTTATTTATTTAATCACGAGGTAAAGGAAAGCTTGCAAGCATAATCTTAACTCAAT
1 GTTATATTATTTATTTATTTAATCACAAGGTAAAGGAAAGCTTCCAAGCATAATCTTAACTCAAT
*
20722691 TCGACACCACACTCAAGTCCAATTACATTGGACAGGGGCTCGGCTTTACTTCGAAGGCTCTTCC
66 TCGACACCACACTCAAGTCCAATTACATTGGACAGGGGCTCGGCCTTACTTCGAAGGCTCTTCC
20722755 GTTATATTATTTATTTATTTAATCACAAGGTAAAGGAAAGCTTCCAAGCATAATCTTAACTCAAT
1 GTTATATTATTTATTTATTTAATCACAAGGTAAAGGAAAGCTTCCAAGCATAATCTTAACTCAAT
* * *
20722820 TCGACGCGACACTCAAGTCCAATTACATTGGACAGGGGCTCGGCCTTACTTCGACGGCTCT
66 TCGACACCACACTCAAGTCCAATTACATTGGACAGGGGCTCGGCCTTACTTCGAAGGCTCT
20722881 CCCCCTTTAA
Statistics
Matches: 120, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 120 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (129 bp):
GTTATATTATTTATTTATTTAATCACAAGGTAAAGGAAAGCTTCCAAGCATAATCTTAACTCAAT
TCGACACCACACTCAAGTCCAATTACATTGGACAGGGGCTCGGCCTTACTTCGAAGGCTCTTCC
Found at i:20724611 original size:48 final size:48
Alignment explanation
Indices: 20724513--20724669 Score: 194
Period size: 48 Copynumber: 3.3 Consensus size: 48
20724503 GATGGGCCAG
* * * * *
20724513 AATAAGCAATATTGGACATAGTC-TTTTA-GTTATTAGTCTAGGCCAG
1 AATAAACAATATTGGACATTGTCTTTTTATGTTATTAGTCTAGTCTAA
*
20724559 AATAAACAATATTGGACTTTGTCTTTTTATGTTATTAGTCTAGTCTAA
1 AATAAACAATATTGGACATTGTCTTTTTATGTTATTAGTCTAGTCTAA
* * * *
20724607 AATAAACAATATTGAACATTGTCTTTTCATGTTATTAGTTTAGGT-TAC
1 AATAAACAATATTGGACATTGTCTTTTTATGTTATTAGTCTA-GTCTAA
20724655 AATAAACAATATTGG
1 AATAAACAATATTGG
20724670 GCTTAGTTAT
Statistics
Matches: 96, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
46 20 0.21
47 5 0.05
48 69 0.72
49 2 0.02
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (48 bp):
AATAAACAATATTGGACATTGTCTTTTTATGTTATTAGTCTAGTCTAA
Found at i:20724666 original size:96 final size:93
Alignment explanation
Indices: 20724508--20724716 Score: 233
Period size: 96 Copynumber: 2.2 Consensus size: 93
20724498 GCATAGATGG
* * * *
20724508 GCCAGAATAAGCAATATTGGACATAGTCTTTTAGTTATTAGTCTAGGCCAGAATAAACAATATTG
1 GCCAAAATAAACAATATTGAACATAGTCTTTTAGTTATTAGTCTAGGCCACAATAAACAATATTG
* *
20724573 GACTTTGTCT-TTTTATGTTATTAGTCT-A
66 GACTTAGT-TATTTT-TGCTATTAGTCTGA
* * * **
20724601 GTCTAAAATAAACAATATTGAACATTGTCTTTTCATGTTATTAGTTTAGGTTACAATAAACAATA
1 G-CCAAAATAAACAATATTGAACATAGTCTTTT-A-GTTATTAGTCTAGGCCACAATAAACAATA
* *
20724666 TTGGGCTTAGTTATTTTTGCTATTAGTTTGA
63 TTGGACTTAGTTATTTTTGCTATTAGTCTGA
*
20724697 GCCAGAATAAACAATATTGA
1 GCCAAAATAAACAATATTGA
20724717 GCTCAGTATA
Statistics
Matches: 96, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
93 1 0.01
94 26 0.27
95 29 0.30
96 40 0.42
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.39
Consensus pattern (93 bp):
GCCAAAATAAACAATATTGAACATAGTCTTTTAGTTATTAGTCTAGGCCACAATAAACAATATTG
GACTTAGTTATTTTTGCTATTAGTCTGA
Found at i:20724706 original size:47 final size:48
Alignment explanation
Indices: 20724655--20724780 Score: 164
Period size: 49 Copynumber: 2.6 Consensus size: 48
20724645 TTTAGGTTAC
* * *
20724655 AATAAACAATATTGGGCTTAGTTATTTTTGCT-ATTAGTTTGAGCCAG
1 AATAAACAATATTGGGCTTAGTTATTTATACTAATTAATTTGAGCCAG
* * *
20724702 AATAAACAATATTGAGCTCAGTATATTTATACTAATTAATTTGAGCTAG
1 AATAAACAATATTGGGCTTAGT-TATTTATACTAATTAATTTGAGCCAG
*
20724751 AATAAATAATATTGGGCTTAGTTTATTTAT
1 AATAAACAATATTGGGCTTAG-TTATTTAT
20724781 GAAATTTGTC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
47 20 0.30
48 8 0.12
49 38 0.57
50 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (48 bp):
AATAAACAATATTGGGCTTAGTTATTTATACTAATTAATTTGAGCCAG
Found at i:20725187 original size:16 final size:15
Alignment explanation
Indices: 20725162--20725191 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
20725152 AATATTTTAT
20725162 TTTGATGACATCAAC
1 TTTGATGACATCAAC
20725177 TTTGAATGACATCAA
1 TTTG-ATGACATCAA
20725192 TTTTCTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (15 bp):
TTTGATGACATCAAC
Found at i:20729268 original size:30 final size:27
Alignment explanation
Indices: 20729214--20729268 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 27
20729204 CTTTCTGATG
*
20729214 GATTTTTCTTTTTCCTTCTTTTTCTCT
1 GATTTTTCTTTTTCCTTCTGTTTCTCT
*
20729241 GATTTTTGTTCTTTCTCTCTCTGTTTCT
1 GATTTTTCTT-TTTC-CT-TCTGTTTCT
20729269 TCCCAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 4 0.17
29 2 0.09
30 8 0.35
ACGTcount: A:0.04, C:0.22, G:0.07, T:0.67
Consensus pattern (27 bp):
GATTTTTCTTTTTCCTTCTGTTTCTCT
Found at i:20735561 original size:73 final size:73
Alignment explanation
Indices: 20735469--20735629 Score: 205
Period size: 73 Copynumber: 2.2 Consensus size: 73
20735459 TTAAGTTGTT
* * * * *
20735469 TCTGTCTTCTGATCTCAGTTTTTGGTAGTAAGCTCTTAGTCGACTAACAACAACTCTTAGTCGAT
1 TCTGTC-TCTGAACCCAGTTTCTAGTAGTAAGCTCTTAGTCAACTAACAACAACTCTTAGTCGAT
20735534 TAAATCATC
65 TAAATCATC
* * *
20735543 TCTGTCTCTGAACCCAGTTTCTAGTAGTAAGCTTTTAGTCAACTAACAATACCTCTTAGTCGATT
1 TCTGTCTCTGAACCCAGTTTCTAGTAGTAAGCTCTTAGTCAACTAACAACAACTCTTAGTCGATT
* *
20735608 AAGTCGTC
66 AAATCATC
* *
20735616 TCTATCTCTAAACC
1 TCTGTCTCTGAACC
20735630 AGCCATCATC
Statistics
Matches: 75, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
73 69 0.92
74 6 0.08
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.37
Consensus pattern (73 bp):
TCTGTCTCTGAACCCAGTTTCTAGTAGTAAGCTCTTAGTCAACTAACAACAACTCTTAGTCGATT
AAATCATC
Found at i:20745563 original size:54 final size:53
Alignment explanation
Indices: 20745525--20745655 Score: 156
Period size: 53 Copynumber: 2.4 Consensus size: 53
20745515 TTTCATATTA
* *
20745525 TTCATCCATTTTTGGTGGGTTAAA-GTATTCATCCATTTTTGGTGGGTTAAAGT
1 TTCATCCATTTTTGATGGGTTAAAGGTATTCATCCATTTTT-GTCGGTTAAAGT
* * *
20745578 TTCATCCATTTTTTATGGGTTAAAGGTATTCATCCAGTTTTGGTGGGTTAAACGT
1 TTCATCCATTTTTGATGGGTTAAAGGTATTCATCCA-TTTTTGTCGGTTAAA-GT
* *
20745633 ATTCATCCAGTTTTGGTGGGTTA
1 -TTCATCCATTTTTGATGGGTTA
20745656 TCCACTTCAG
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
53 22 0.32
54 21 0.31
55 6 0.09
56 19 0.28
ACGTcount: A:0.21, C:0.12, G:0.23, T:0.44
Consensus pattern (53 bp):
TTCATCCATTTTTGATGGGTTAAAGGTATTCATCCATTTTTGTCGGTTAAAGT
Found at i:20745610 original size:28 final size:27
Alignment explanation
Indices: 20745523--20745655 Score: 205
Period size: 28 Copynumber: 4.9 Consensus size: 27
20745513 CTTTTCATAT
20745523 TATTCATCCATTTTTGGTGGGTTAAAG
1 TATTCATCCATTTTTGGTGGGTTAAAG
20745550 TATTCATCCATTTTTGGTGGGTTAAAG
1 TATTCATCCATTTTTGGTGGGTTAAAG
**
20745577 T-TTCATCCATTTTTTATGGGTTAAAGG
1 TATTCATCCATTTTTGGTGGGTTAAA-G
*
20745604 TATTCATCCAGTTTTGGTGGGTTAAACG
1 TATTCATCCATTTTTGGTGGGTTAAA-G
*
20745632 TATTCATCCAGTTTTGGTGGGTTA
1 TATTCATCCATTTTTGGTGGGTTA
20745656 TCCACTTCAG
Statistics
Matches: 98, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
26 22 0.22
27 30 0.31
28 46 0.47
ACGTcount: A:0.21, C:0.12, G:0.23, T:0.44
Consensus pattern (27 bp):
TATTCATCCATTTTTGGTGGGTTAAAG
Found at i:20745741 original size:27 final size:27
Alignment explanation
Indices: 20745706--20745769 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
20745696 TTCTAATGGG
*
20745706 TAAAATTATCCATCCACTTATAGTAGA
1 TAAAGTTATCCATCCACTTATAGTAGA
* * *
20745733 TAAAGTTATCCATCTACTTCTAGTGGA
1 TAAAGTTATCCATCCACTTATAGTAGA
*
20745760 CAAAGTTATC
1 TAAAGTTATC
20745770 TTTAGAATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (27 bp):
TAAAGTTATCCATCCACTTATAGTAGA
Found at i:20747429 original size:36 final size:36
Alignment explanation
Indices: 20747389--20747471 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
20747379 ATGGAAATAT
**
20747389 AGAGAATGCAGCGGAT-AATCCTCATAATGGCCATGC
1 AGAGAATGCAGAAGATGAA-CCTCATAATGGCCATGC
* * *
20747425 AGAGAATGCAGAAGATGAACCTCTTAATGGTCGTGC
1 AGAGAATGCAGAAGATGAACCTCATAATGGCCATGC
*
20747461 ACAGAATGCAG
1 AGAGAATGCAG
20747472 TAGGTGATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
36 38 0.95
37 2 0.05
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (36 bp):
AGAGAATGCAGAAGATGAACCTCATAATGGCCATGC
Found at i:20749737 original size:20 final size:20
Alignment explanation
Indices: 20749689--20749733 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
20749679 GCACCCTATC
*
20749689 AATAATTAAGAAAAATTTCTA
1 AATAATTTA-AAAAATTTCTA
*
20749710 AATTATTTAAAAAATTT-TA
1 AATAATTTAAAAAATTTCTA
20749729 AATAA
1 AATAA
20749734 ATTTTTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 6 0.29
20 8 0.38
21 7 0.33
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
AATAATTTAAAAAATTTCTA
Found at i:20750660 original size:11 final size:11
Alignment explanation
Indices: 20750640--20750674 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
20750630 TGATAAAGAA
20750640 ATTGCCTATAT
1 ATTGCCTATAT
*
20750651 ATTGCTTATAT
1 ATTGCCTATAT
20750662 ATTGCCTATAT
1 ATTGCCTATAT
20750673 AT
1 AT
20750675 AAAAGGATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.49
Consensus pattern (11 bp):
ATTGCCTATAT
Found at i:20760367 original size:210 final size:210
Alignment explanation
Indices: 20760001--20760409 Score: 477
Period size: 210 Copynumber: 1.9 Consensus size: 210
20759991 GCATTTGCAG
* * *
20760001 GATAGGCGTCCCTTTGATGTCAAGATGCTTCAATTTGGTAAGATTCTCCATGCATGTTGGCAAAC
1 GATAGGCGTCCCCTTGACGTCAAGATGCTTCAATTTGGTAAGATTCTCCATGCATGCTGGCAAAC
* * * *
20760066 AAGTGAGCTGAGGACAACGTGACAACTTCAGTGTCTGCAAATTATACAAAGAACATGCTCCTTCA
66 AAGTGAGCTGAGGACAACCTGACAACTTCAGTGTCTCCAAATTATACAAACAACATACTCCTTCA
* **** * * *
20760131 GGAAAACGTCGAATTTTAGTGCCAGAAAAGTCCAAGTAGCCTAGCTGTTTTAAGTTGCCAATTGA
131 GGAAAACATCGAAGAGCAGCGCCAGAAAAGTCCAAGTAGCCTAGCTGTTTTAAGTTGCAAACTGA
20760196 ATCAAGCAACTCCCC
196 ATCAAGCAACTCCCC
* * *
20760211 GATAGGCGTCCCCTTGACGTCAAGATG-TTCTAGTTTGGTAAGATTC-CTTAGTTC-TGCTGGCA
1 GATAGGCGTCCCCTTGACGTCAAGATGCTTC-AATTTGGTAAGATTCTC-CA-TGCATGCTGGCA
* * * * * * *
20760273 ACCACGTGAGAC-GATGACAACCTGACAACTTCAGTGTCTCCAAGTTATGCAAACAGCCTAC-CC
63 AACAAGTGAG-CTGAGGACAACCTGACAACTTCAGTGTCTCCAAATTATACAAACAACATACTCC
* * * *
20760336 TTTCAGGCAAACATCGAAGAGCAGCGCCAGAAAGGTCCAAGTAGCGTAGCTGTTTTACGTTGCAA
127 -TTCAGGAAAACATCGAAGAGCAGCGCCAGAAAAGTCCAAGTAGCCTAGCTGTTTTAAGTTGCAA
20760401 ACTGAATCA
191 ACTGAATCA
20760410 GGGAACTCTG
Statistics
Matches: 165, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
209 6 0.04
210 156 0.95
211 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (210 bp):
GATAGGCGTCCCCTTGACGTCAAGATGCTTCAATTTGGTAAGATTCTCCATGCATGCTGGCAAAC
AAGTGAGCTGAGGACAACCTGACAACTTCAGTGTCTCCAAATTATACAAACAACATACTCCTTCA
GGAAAACATCGAAGAGCAGCGCCAGAAAAGTCCAAGTAGCCTAGCTGTTTTAAGTTGCAAACTGA
ATCAAGCAACTCCCC
Found at i:20766558 original size:19 final size:19
Alignment explanation
Indices: 20766534--20766571 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
20766524 ACTTCTTAAC
20766534 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
*
20766553 CTCAAATCATACTCTAATA
1 CTCAAATCATACTCCAATA
20766572 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:20776081 original size:19 final size:19
Alignment explanation
Indices: 20776053--20776090 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
20776043 CCATTTGACT
*
20776053 TATTGGAGTATGATTTGAG
1 TATTGAAGTATGATTTGAG
20776072 TATTGAAGTATGATTTGAG
1 TATTGAAGTATGATTTGAG
20776091 GTTGAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGAAGTATGATTTGAG
Found at i:20777651 original size:2 final size:2
Alignment explanation
Indices: 20777644--20777673 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
20777634 CGAAATTCGG
20777644 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20777674 GTACCTCGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20779166 original size:27 final size:28
Alignment explanation
Indices: 20779119--20779177 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
20779109 ATTCGGAGTC
* *
20779119 AAATCGAAATTTTCACTATCTAGGGGCA
1 AAATCGAAATTTTCACTATCTACGGACA
*
20779147 AAATCGTAATTTTTC-C-ATCTACGGACA
1 AAATCG-AAATTTTCACTATCTACGGACA
20779174 AAAT
1 AAAT
20779178 TTGAGATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 13 0.48
28 7 0.26
29 7 0.26
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.31
Consensus pattern (28 bp):
AAATCGAAATTTTCACTATCTACGGACA
Found at i:20783702 original size:13 final size:13
Alignment explanation
Indices: 20783684--20783708 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20783674 GGAAAATGAG
20783684 ATTTTATAAAATA
1 ATTTTATAAAATA
20783697 ATTTTATAAAAT
1 ATTTTATAAAAT
20783709 TTTTGAAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:20785061 original size:41 final size:41
Alignment explanation
Indices: 20785016--20785099 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
20785006 TCCATTTAGG
20785016 TAAGGGTTACTACTTATTAGGCTATCAGAATTAATTAGCAA
1 TAAGGGTTACTACTTATTAGGCTATCAGAATTAATTAGCAA
*
20785057 TAAGGGTTACTACTTATTAGGCTATCAGAGTTAATTAGCAA
1 TAAGGGTTACTACTTATTAGGCTATCAGAATTAATTAGCAA
20785098 TA
1 TA
20785100 GTTTTCCAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.35
Consensus pattern (41 bp):
TAAGGGTTACTACTTATTAGGCTATCAGAATTAATTAGCAA
Found at i:20787229 original size:22 final size:23
Alignment explanation
Indices: 20787186--20787230 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
20787176 TAATAAATGA
*
20787186 TAAAAAATTACAAAAGACAAATC
1 TAAAAAATTACAAAAGAAAAATC
20787209 TAAAAAATATA-AAAA-AAAAATC
1 TAAAAAAT-TACAAAAGAAAAATC
20787231 AACTATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 12 0.60
24 2 0.10
ACGTcount: A:0.71, C:0.09, G:0.02, T:0.18
Consensus pattern (23 bp):
TAAAAAATTACAAAAGAAAAATC
Found at i:20787676 original size:23 final size:23
Alignment explanation
Indices: 20787648--20787694 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
20787638 TTCTTATCTT
20787648 TCTTTAGTTATTCTTTTAAGTTA
1 TCTTTAGTTATTCTTTTAAGTTA
* *
20787671 TCTTTATTTGTTCTTTTAAGTTA
1 TCTTTAGTTATTCTTTTAAGTTA
20787694 T
1 T
20787695 ATTTTCATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.19, C:0.09, G:0.09, T:0.64
Consensus pattern (23 bp):
TCTTTAGTTATTCTTTTAAGTTA
Found at i:20788089 original size:54 final size:55
Alignment explanation
Indices: 20788025--20788182 Score: 149
Period size: 57 Copynumber: 2.8 Consensus size: 55
20788015 GCTATTATAT
* * * * * **
20788025 AGCTATTAATAAAAAATCATGAA-TGTTCGTTCCCTGAAGTGAATGCGATGAACA
1 AGCTACTAATAAAAAATCATAAACTGTTCATTCCCTGAAGTGAATACAACAAACA
* *
20788079 AGCTACTAATAAAAAAATTATAAATCTGTTCATTCCCTGAAGTGAATACAACAAACG
1 AGCTACTAAT-AAAAAATCATAAA-CTGTTCATTCCCTGAAGTGAATACAACAAACA
* * *
20788136 AGCTACTAATAAAAAAATTATAAATCT-ATCTATTCCCTAAAGTGAAT
1 AGCTACTAAT-AAAAAATCATAAA-CTGTTC-ATTCCCTGAAGTGAAT
20788183 GTGACATCAT
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
54 9 0.10
55 11 0.12
56 2 0.02
57 67 0.75
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (55 bp):
AGCTACTAATAAAAAATCATAAACTGTTCATTCCCTGAAGTGAATACAACAAACA
Found at i:20788120 original size:57 final size:57
Alignment explanation
Indices: 20788048--20788183 Score: 184
Period size: 57 Copynumber: 2.4 Consensus size: 57
20788038 AAATCATGAA
* * **
20788048 TGTTCGTTCCCTGAAGTGAATGCGATGAACAAGCTACTAATAAAAAAATTATAAATC
1 TGTTCATTCCCTGAAGTGAATGCAACAAACAAGCTACTAATAAAAAAATTATAAATC
* *
20788105 TGTTCATTCCCTGAAGTGAATACAACAAACGAGCTACTAATAAAAAAATTATAAATC
1 TGTTCATTCCCTGAAGTGAATGCAACAAACAAGCTACTAATAAAAAAATTATAAATC
* *
20788162 T-ATCTATTCCCTAAAGTGAATG
1 TGTTC-ATTCCCTGAAGTGAATG
20788184 TGACATCATT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
56 2 0.03
57 67 0.97
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (57 bp):
TGTTCATTCCCTGAAGTGAATGCAACAAACAAGCTACTAATAAAAAAATTATAAATC
Found at i:20788422 original size:18 final size:18
Alignment explanation
Indices: 20788401--20788440 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
20788391 AATTCACTAG
20788401 AAGTAGATAACCCATTAT
1 AAGTAGATAACCCATTAT
* * *
20788419 AAGTGGGTCACCCATTAT
1 AAGTAGATAACCCATTAT
20788437 AAGT
1 AAGT
20788441 GAATGGATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (18 bp):
AAGTAGATAACCCATTAT
Found at i:20790385 original size:13 final size:13
Alignment explanation
Indices: 20790367--20790401 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
20790357 ATAATATGCA
20790367 AAATTTTGTTGAG
1 AAATTTTGTTGAG
*
20790380 AAATTTTTTTGAG
1 AAATTTTGTTGAG
20790393 AAATGTTTG
1 AAAT-TTTG
20790402 AATTGTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 16 0.84
14 3 0.16
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (13 bp):
AAATTTTGTTGAG
Found at i:20794900 original size:2 final size:2
Alignment explanation
Indices: 20794893--20794940 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
20794883 CAATTAAAAC
20794893 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20794935 TA TA TA
1 TA TA TA
20794941 NNNNNNNNNN
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20794971 original size:2 final size:2
Alignment explanation
Indices: 20794964--20794995 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
20794954 NNNNNNNNNG
*
20794964 TA TA TA TA TA TA TC TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20794996 CCTAAGAAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20798297 original size:48 final size:48
Alignment explanation
Indices: 20798140--20798380 Score: 236
Period size: 51 Copynumber: 4.9 Consensus size: 48
20798130 AGAAGATGAG
* * *
20798140 AAAGAATCATCGAGTTTCTTACTTGGTATGAAGTGCTCTGGAAAGAGA
1 AAAGAATCATCCAGTTTCTCACTTGGTATGGAGTGCTCTGGAAAGAGA
* * *
20798188 AAAGAATCATCCAGTCTCTCATCACTTGGTCTGGAGT--ACTGTAAAGAGCCA
1 AAAGAATCATCCAGT-T-TC-TCACTTGGTATGGAGTGCTCTGGAAAGAG--A
* *
20798239 AAA-AATTCATCCGGTTTCTGACTTGGTATGGAGTGCTCTGGAAAGAGA
1 AAAGAA-TCATCCAGTTTCTCACTTGGTATGGAGTGCTCTGGAAAGAGA
* * **
20798287 AAAGAATCATCCACTTTCTCATCTCTTGGTATGGAGTACTCTGGAAAGCCA
1 AAAGAATCATCCAGTTTCTCA---CTTGGTATGGAGTGCTCTGGAAAGAGA
* * * *
20798338 AAAGAATCATCCACTTTCTTACTTGGTACGGAGTGTTCTGGAA
1 AAAGAATCATCCAGTTTCTCACTTGGTATGGAGTGCTCTGGAA
20798381 TGCCAAAAGA
Statistics
Matches: 160, Mismatches: 21, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
48 63 0.39
49 14 0.09
50 14 0.09
51 69 0.43
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (48 bp):
AAAGAATCATCCAGTTTCTCACTTGGTATGGAGTGCTCTGGAAAGAGA
Found at i:20798386 original size:48 final size:48
Alignment explanation
Indices: 20798140--20798391 Score: 229
Period size: 48 Copynumber: 5.1 Consensus size: 48
20798130 AGAAGATGAG
* * * **
20798140 AAAGAATCATCGAGTTTCTTACTTGGTATGAAGTGCTCTGGAAAGAGA
1 AAAGAATCATCCACTTTCTTACTTGGTATGGAGTGCTCTGGAAAGCCA
* * * * * *
20798188 AAAGAATCATCCAGTCTCTCATCACTTGGTCTGGAGTACTGT-AAAGAGCCA
1 AAAGAATCATCCA--CTTTC-TTACTTGGTATGGAGTGCTCTGGAA-AGCCA
** * **
20798239 AAA-AATTCATCCGGTTTCTGACTTGGTATGGAGTGCTCTGGAAAGAGA
1 AAAGAA-TCATCCACTTTCTTACTTGGTATGGAGTGCTCTGGAAAGCCA
* *
20798287 AAAGAATCATCCACTTTCTCATCTCTTGGTATGGAGTACTCTGGAAAGCCA
1 AAAGAATCATCCACTTTCT--T-ACTTGGTATGGAGTGCTCTGGAAAGCCA
* * *
20798338 AAAGAATCATCCACTTTCTTACTTGGTACGGAGTGTTCTGGAATGCCA
1 AAAGAATCATCCACTTTCTTACTTGGTATGGAGTGCTCTGGAAAGCCA
20798386 AAAGAA
1 AAAGAA
20798392 ACATGGCCTG
Statistics
Matches: 161, Mismatches: 33, Indels: 20
0.75 0.15 0.09
Matches are distributed among these distances:
48 75 0.47
49 8 0.05
50 7 0.04
51 71 0.44
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGAATCATCCACTTTCTTACTTGGTATGGAGTGCTCTGGAAAGCCA
Found at i:20798391 original size:99 final size:99
Alignment explanation
Indices: 20798140--20798380 Score: 333
Period size: 99 Copynumber: 2.4 Consensus size: 99
20798130 AGAAGATGAG
* * *
20798140 AAAGAATCATCGAGTTTCTTACTTGGTATGAAGTGCTCTGGAAAGAGAAAAGAATCATCCAGTCT
1 AAAGAATCATCCAGTTTCTTACTTGGTATGGAGTGCTCTGGAAAGAGAAAAGAATCATCCACTCT
* *
20798205 CTCATCACTTGGTCTGGAGTACTGTAAAGAGCCA
66 CTCATCACTTGGTATGGAGTACTCTAAAGAGCCA
* * *
20798239 AAA-AATTCATCCGGTTTCTGACTTGGTATGGAGTGCTCTGGAAAGAGAAAAGAATCATCCACTT
1 AAAGAA-TCATCCAGTTTCTTACTTGGTATGGAGTGCTCTGGAAAGAGAAAAGAATCATCCACTC
* *
20798303 TCTCATCTCTTGGTATGGAGTACTCTGGAA-AGCCA
65 TCTCATCACTTGGTATGGAGTACTCT-AAAGAGCCA
* * *
20798338 AAAGAATCATCCACTTTCTTACTTGGTACGGAGTGTTCTGGAA
1 AAAGAATCATCCAGTTTCTTACTTGGTATGGAGTGCTCTGGAA
20798381 TGCCAAAAGA
Statistics
Matches: 124, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
98 2 0.02
99 118 0.95
100 4 0.03
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (99 bp):
AAAGAATCATCCAGTTTCTTACTTGGTATGGAGTGCTCTGGAAAGAGAAAAGAATCATCCACTCT
CTCATCACTTGGTATGGAGTACTCTAAAGAGCCA
Found at i:20806662 original size:81 final size:81
Alignment explanation
Indices: 20806546--20806853 Score: 454
Period size: 81 Copynumber: 3.8 Consensus size: 81
20806536 ACCTATTGGT
* * *
20806546 AGATAATATTTATATATTTTTTTACCAATCAAAAATTAGTAATTGGTCATTCAATTTATCTCTAA
1 AGATAATA-TT-TATA-TTTTTGACCAATCAAAAATTAGTTATTGGTCATCCAATTTATCTCTAA
20806611 ATAAATCAAAATAATTTAG
63 ATAAATCAAAATAATTTAG
* * *
20806630 AGATAATATTTATATTTTTGACCAATTAAAAATCAATTATTGGTCATCCAATTTATCTCTAAATA
1 AGATAATATTTATATTTTTGACCAATCAAAAATTAGTTATTGGTCATCCAATTTATCTCTAAATA
20806695 AATCAAAATAATTTAG
66 AATCAAAATAATTTAG
* *
20806711 AGATAATATTTATATTTTTTACCAATCATAAATTAGTTATTGGTCATCCAATTTATCTCTAAATA
1 AGATAATATTTATATTTTTGACCAATCAAAAATTAGTTATTGGTCATCCAATTTATCTCTAAATA
20806776 AATCAAAATAATTTAG
66 AATCAAAATAATTTAG
* * ** * **
20806792 AGATAATATTCATATTTTTGACCAATCAAAATTTAACTATTGATCATTTAATTTATCTCTAA
1 AGATAATATTTATATTTTTGACCAATCAAAAATTAGTTATTGGTCATCCAATTTATCTCTAA
20806854 TAATTATATT
Statistics
Matches: 204, Mismatches: 20, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
81 190 0.93
82 4 0.02
83 2 0.01
84 8 0.04
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.42
Consensus pattern (81 bp):
AGATAATATTTATATTTTTGACCAATCAAAAATTAGTTATTGGTCATCCAATTTATCTCTAAATA
AATCAAAATAATTTAG
Found at i:20807241 original size:23 final size:23
Alignment explanation
Indices: 20807214--20807310 Score: 113
Period size: 23 Copynumber: 4.1 Consensus size: 23
20807204 CTGAAGTGAA
*
20807214 GATCAAGTAACAACGAAGTTCAT
1 GATCAAGTAACAACGAAGTTCGT
* *
20807237 GATCAAGTAGCAACGAAGTTTGT
1 GATCAAGTAACAACGAAGTTCGT
* *
20807260 GATCAAGCAACAACAAAGTTCGT
1 GATCAAGTAACAACGAAGTTCGT
* *
20807283 GATCAAGATATCAAGCAAAGTTCGT
1 GATCAAG-TAACAA-CGAAGTTCGT
20807308 GAT
1 GAT
20807311 TAAGATATTG
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 46 0.73
24 4 0.06
25 13 0.21
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (23 bp):
GATCAAGTAACAACGAAGTTCGT
Found at i:20807373 original size:49 final size:49
Alignment explanation
Indices: 20807320--20807689 Score: 465
Period size: 49 Copynumber: 7.5 Consensus size: 49
20807310 TTAAGATATT
* * *
20807320 GTGTTCGTTACCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAGATCAA
1 GTGTTCGTGATCAAGATTAAGTCGTCAAGACCCTTGAAGCGAAGATCAA
20807369 GTGTTCGTGATCAAGATTAAGTCGTCAAGACCCTTGAAGCGAAGATCAA
1 GTGTTCGTGATCAAGATTAAGTCGTCAAGACCCTTGAAGCGAAGATCAA
* * **
20807418 GTGTTCATGATCAAGATTAAGTCGTCAA-A-CCTTCAAAGAAAAGATCAA
1 GTGTTCGTGATCAAGATTAAGTCGTCAAGACCCTT-GAAGCGAAGATCAA
* * * *
20807466 GTGTTCGTGATCAAGATTAAGTCGTCAAGTCCATTAAAGCGAAGATAAA
1 GTGTTCGTGATCAAGATTAAGTCGTCAAGACCCTTGAAGCGAAGATCAA
* * *
20807515 GTGTTTGTGATCAAGATTAAGTCATCAAGACCTTTGAAGCGAAGATCAA
1 GTGTTCGTGATCAAGATTAAGTCGTCAAGACCCTTGAAGCGAAGATCAA
* * * * *
20807564 GTGTTCGTGATTAAGATTAAGTCGTCAAGACCCTTAAAGCGGATATTAA
1 GTGTTCGTGATCAAGATTAAGTCGTCAAGACCCTTGAAGCGAAGATCAA
* *
20807613 GCGAAGTTCGTGATCAAGATTAAGTCGTCAAGACCCTTGATGCGAAGATCAA
1 --G-TGTTCGTGATCAAGATTAAGTCGTCAAGACCCTTGAAGCGAAGATCAA
* *
20807665 GCAAGTTCGTGATCAAGACTAAGTC
1 G--TGTTCGTGATCAAGATTAAGTC
20807690 TAAGTTCGTG
Statistics
Matches: 279, Mismatches: 35, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
47 4 0.01
48 39 0.14
49 168 0.60
50 4 0.01
51 23 0.08
52 41 0.15
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.26
Consensus pattern (49 bp):
GTGTTCGTGATCAAGATTAAGTCGTCAAGACCCTTGAAGCGAAGATCAA
Found at i:20807482 original size:97 final size:98
Alignment explanation
Indices: 20807320--20807647 Score: 408
Period size: 97 Copynumber: 3.3 Consensus size: 98
20807310 TTAAGATATT
* * * * **
20807320 GTGTTCGTTACCAAGATTAAGTCGTGAAGACCCTT-GAAGCGAAGATCAAGTGTTCGTGATCAAG
1 GTGTTCGTGATCAAGATTAAGTCGTCAAGA-CCTTCAAAGAAAAGATCAAGTGTTCGTGATCAAG
* *
20807384 ATTAAGTCGTCAAGACCCTTGAAGCGAAGATCAA
65 ATTAAGTCGTCAAGACCCTTAAAGCGAAGATAAA
*
20807418 GTGTTCATGATCAAGATTAAGTCGTCAA-ACCTTCAAAGAAAAGATCAAGTGTTCGTGATCAAGA
1 GTGTTCGTGATCAAGATTAAGTCGTCAAGACCTTCAAAGAAAAGATCAAGTGTTCGTGATCAAGA
* *
20807482 TTAAGTCGTCAAGTCCATTAAAGCGAAGATAAA
66 TTAAGTCGTCAAGACCCTTAAAGCGAAGATAAA
* * ** ** *
20807515 GTGTTTGTGATCAAGATTAAGTCATCAAGACCTTTGAAGCGAAGATCAAGTGTTCGTGATTAAGA
1 GTGTTCGTGATCAAGATTAAGTCGTCAAGACCTTCAAAGAAAAGATCAAGTGTTCGTGATCAAGA
* * *
20807580 TTAAGTCGTCAAGACCCTTAAAGCGGATATTAAGC
66 TTAAGTCGTCAAGACCCTTAAAGCGAAGA-TAA-A
*
20807615 GAAGTTCGTGATCAAGATTAAGTCGTCAAGACC
1 G-TGTTCGTGATCAAGATTAAGTCGTCAAGACC
20807648 CTTGATGCGA
Statistics
Matches: 198, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
96 4 0.02
97 82 0.41
98 80 0.40
99 3 0.02
100 1 0.01
101 28 0.14
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (98 bp):
GTGTTCGTGATCAAGATTAAGTCGTCAAGACCTTCAAAGAAAAGATCAAGTGTTCGTGATCAAGA
TTAAGTCGTCAAGACCCTTAAAGCGAAGATAAA
Found at i:20807487 original size:146 final size:148
Alignment explanation
Indices: 20807320--20807689 Score: 485
Period size: 146 Copynumber: 2.5 Consensus size: 148
20807310 TTAAGATATT
* * *
20807320 GTGTTCGTTACCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGTGTTCGTGATCAAGA
1 GTGTTCGTGATCAAGATTAAGTCGTCAAGACCCTTGAAGCGAAGATCAAGTGTTCGTGATCAAGA
*
20807385 TTAAGTCGTCAAGACCCTTGAAGCGAAGATCAAGTGTTCATGATCAAGATTAAGTCGTCAA-A-C
66 TTAAGTCATCAAGACCCTTGAAGCGAAGATCAAGTGTTCATGATCAAGATTAAGTCGTCAAGACC
20807448 CTTCAAAGAAAAGATCAA-
131 CTT-AAAGAAAAGATCAAC
* * * * *
20807466 GTGTTCGTGATCAAGATTAAGTCGTCAAGTCCATTAAAGCGAAGATAAAGTGTTTGTGATCAAGA
1 GTGTTCGTGATCAAGATTAAGTCGTCAAGACCCTTGAAGCGAAGATCAAGTGTTCGTGATCAAGA
* * *
20807531 TTAAGTCATCAAGACCTTTGAAGCGAAGATCAAGTGTTCGTGATTAAGATTAAGTCGTCAAGACC
66 TTAAGTCATCAAGACCCTTGAAGCGAAGATCAAGTGTTCATGATCAAGATTAAGTCGTCAAGACC
*** * *
20807596 CTTAAAGCGGATATTAAGC
131 CTTAAAGAAAAGATCAA-C
* * *
20807615 GAAGTTCGTGATCAAGATTAAGTCGTCAAGACCCTTGATGCGAAGATCAAGCAAGTTCGTGATCA
1 G-TGTTCGTGATCAAGATTAAGTCGTCAAGACCCTTGAAGCGAAGATCAAG--TGTTCGTGATCA
*
20807680 AGACTAAGTC
63 AGATTAAGTC
20807690 TAAGTTCGTG
Statistics
Matches: 191, Mismatches: 26, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
146 114 0.60
147 10 0.05
148 4 0.02
149 1 0.01
150 43 0.23
152 19 0.10
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.26
Consensus pattern (148 bp):
GTGTTCGTGATCAAGATTAAGTCGTCAAGACCCTTGAAGCGAAGATCAAGTGTTCGTGATCAAGA
TTAAGTCATCAAGACCCTTGAAGCGAAGATCAAGTGTTCATGATCAAGATTAAGTCGTCAAGACC
CTTAAAGAAAAGATCAAC
Done.