Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 18 of 438
Found at i:4976741 original size:15 final size:17
Alignment explanation
Indices: 4976721--4976752 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
4976711 AAATATTTGA
4976721 TATTAA-TTAA-ATATT
1 TATTAAGTTAACATATT
4976736 TATTAAGTTAACATATT
1 TATTAAGTTAACATATT
4976753 ATATATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
TATTAAGTTAACATATT
Found at i:4977103 original size:37 final size:37
Alignment explanation
Indices: 4977048--4977119 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 37
4977038 ATTATTATGG
4977048 TATTGAATTGAATAAAAAT-TCATGAATTATT-AGTGAT
1 TATTGAATTGAATAAAAATAT-ATGAA-TATTGAGTGAT
4977085 TATTGATATTGAAT-AAAATATATGAATATTGAGTG
1 TATTGA-ATTGAATAAAAATATATGAATATTGAGTG
4977120 GAAAATTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
36 4 0.12
37 20 0.62
38 8 0.25
ACGTcount: A:0.43, C:0.01, G:0.15, T:0.40
Consensus pattern (37 bp):
TATTGAATTGAATAAAAATATATGAATATTGAGTGAT
Found at i:4977128 original size:38 final size:37
Alignment explanation
Indices: 4977049--4977129 Score: 87
Period size: 37 Copynumber: 2.2 Consensus size: 37
4977039 TTATTATGGT
**
4977049 ATTGAATTGAATAAAAATTCATGAATTATTAGTGATT
1 ATTGAATTGAATAAAAATTCATGAATTATTAGTGAAA
4977086 ATTGATATTGAAT-AAAATAT-ATGAA-TATTGAGTGGAAA
1 ATTGA-ATTGAATAAAAAT-TCATGAATTATT-AGT-GAAA
4977124 ATTGAA
1 ATTGAA
4977130 AAATGTATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
36 4 0.11
37 19 0.50
38 15 0.39
ACGTcount: A:0.46, C:0.01, G:0.16, T:0.37
Consensus pattern (37 bp):
ATTGAATTGAATAAAAATTCATGAATTATTAGTGAAA
Found at i:4977607 original size:18 final size:18
Alignment explanation
Indices: 4977584--4977638 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
4977574 AGTATTAAAG
*
4977584 ATTGACTGCTACTGAATA
1 ATTGACTGATACTGAATA
*
4977602 ATTGACT-ATTACAGAATA
1 ATTGACTGA-TACTGAATA
**
4977620 AACGACTGATACTGAATA
1 ATTGACTGATACTGAATA
4977638 A
1 A
4977639 ATGAATATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 29 0.97
19 1 0.03
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (18 bp):
ATTGACTGATACTGAATA
Found at i:4980697 original size:3 final size:3
Alignment explanation
Indices: 4980683--4980758 Score: 52
Period size: 3 Copynumber: 26.7 Consensus size: 3
4980673 TGGGCAGTAA
* * * * *
4980683 AAG AAA AAG AAG AAG TAG -AG AAG AAG AAG AAG AAA AAG AA- AAA AAA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* * *
4980729 AAG GAG AAG AAG -AT AAG AAG -AG AAA AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
4980759 TTCTAGAGTG
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
2 7 0.12
3 50 0.88
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:4980741 original size:20 final size:20
Alignment explanation
Indices: 4980681--4980747 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
4980671 GTTGGGCAGT
*
4980681 AAAAGAAAAAGAAGAAGTAG
1 AAAAGAAAAAGAAGAAGAAG
* * *
4980701 AGAAGAAGAAGAAGAAAAAG
1 AAAAGAAAAAGAAGAAGAAG
* *
4980721 AAAAAAAAAAGGAGAAGAAG
1 AAAAGAAAAAGAAGAAGAAG
*
4980741 ATAAGAA
1 AAAAGAA
4980748 GAGAAAAAGA
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (20 bp):
AAAAGAAAAAGAAGAAGAAG
Found at i:4989015 original size:21 final size:21
Alignment explanation
Indices: 4988989--4989029 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4988979 AGACGAGCAA
* *
4988989 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
4989010 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
4989030 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:4994913 original size:11 final size:11
Alignment explanation
Indices: 4994899--4994939 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
4994889 TATTTTCTCC
4994899 CTATTTTGCTA
1 CTATTTTGCTA
*
4994910 CTATTTTACTA
1 CTATTTTGCTA
* *
4994921 TTATATTGCTA
1 CTATTTTGCTA
4994932 CTATTTTG
1 CTATTTTG
4994940 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:4995037 original size:30 final size:29
Alignment explanation
Indices: 4994976--4995037 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 29
4994966 ACTTATTTTA
*
4994976 TTGTTAATTTTTTATTATTTTAAAGATAT
1 TTGTTAATTTTTTATTATTTTAAAGACAT
* *
4995005 TTGTTAATTTTATTATTATTTTATAGGCAT
1 TTGTTAATTTT-TTATTATTTTAAAGACAT
4995035 TTG
1 TTG
4995038 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 11 0.38
30 18 0.62
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (29 bp):
TTGTTAATTTTTTATTATTTTAAAGACAT
Found at i:4995596 original size:43 final size:43
Alignment explanation
Indices: 4995532--4995613 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
4995522 AAAATGTATA
*
4995532 CAACTTTTTCAATAAAGGGTGGCTATTACAA-CTTTATTTCATT
1 CAACTTTTTCAATAAACGGTGGCTATTA-AATCTTTATTTCATT
*
4995575 CAACTTTTTCAATAAACGGTGGCTGTTAAATCTTTATTT
1 CAACTTTTTCAATAAACGGTGGCTATTAAATCTTTATTT
4995614 TAAGGGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 2 0.06
43 34 0.94
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (43 bp):
CAACTTTTTCAATAAACGGTGGCTATTAAATCTTTATTTCATT
Found at i:5001544 original size:43 final size:43
Alignment explanation
Indices: 5001483--5001569 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
5001473 TTAAAAATGT
*
5001483 ATACAACTTTTTCAATAAAAGGTGGCTATTACAACTTTATTTC
1 ATACAACTTTTTCAATAAAAGATGGCTATTACAACTTTATTTC
* * *
5001526 ATACAACTTTTTCAATAAACGATGGCTGTTACATCTTTATTTC
1 ATACAACTTTTTCAATAAAAGATGGCTATTACAACTTTATTTC
5001569 A
1 A
5001570 AGGTTAAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.40
Consensus pattern (43 bp):
ATACAACTTTTTCAATAAAAGATGGCTATTACAACTTTATTTC
Found at i:5001688 original size:22 final size:21
Alignment explanation
Indices: 5001645--5001689 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
5001635 TGTGTACATC
*
5001645 AATCACATTTTTCCTTATAAT
1 AATCACATTTTTCCTTAAAAT
* *
5001666 AATCACTTTTTTCTTTTAAAAT
1 AATCACATTTTTC-CTTAAAAT
5001688 AA
1 AA
5001690 ATTGATCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.49
Consensus pattern (21 bp):
AATCACATTTTTCCTTAAAAT
Found at i:5010199 original size:1 final size:1
Alignment explanation
Indices: 5010193--5010234 Score: 57
Period size: 1 Copynumber: 42.0 Consensus size: 1
5010183 TTAGTACTTA
* * *
5010193 TTTTTTTCTTCTTTTTTTTTCTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
5010235 AAATTTTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (1 bp):
T
Found at i:5010211 original size:13 final size:12
Alignment explanation
Indices: 5010193--5010234 Score: 68
Period size: 11 Copynumber: 3.5 Consensus size: 12
5010183 TTAGTACTTA
5010193 TTTTTTTCTTCTT
1 TTTTTTTCTT-TT
5010206 TTTTTTTCTTTT
1 TTTTTTTCTTTT
5010218 TTTTTTT-TTTT
1 TTTTTTTCTTTT
5010229 TTTTTT
1 TTTTTT
5010235 AAATTTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.34
12 9 0.31
13 10 0.34
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:5010517 original size:118 final size:118
Alignment explanation
Indices: 5010357--5010587 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 118
5010347 TATTTCCGGT
5010357 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
5010422 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
****
5010475 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
**
5010540 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
5010588 ATGGAAAACA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
Found at i:5011416 original size:42 final size:42
Alignment explanation
Indices: 5011348--5011437 Score: 103
Period size: 42 Copynumber: 2.1 Consensus size: 42
5011338 TGAAAAGGGG
* * * *
5011348 TGTTTGGCTGCAGGTTTTGGGGATTCTAAGGCT-GAATAGGAC
1 TGTTTGGCTGCAGGATATGGGCATTCT-AGGCTGGAATAGAAC
*
5011390 TGTTTGGCTGCAGAGATAT-GGCATTCTGGGCTGGAATAGAAC
1 TGTTTGGCTGCAG-GATATGGGCATTCTAGGCTGGAATAGAAC
5011432 TGTTTG
1 TGTTTG
5011438 ACAGCATGGA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 4 0.10
42 34 0.83
43 3 0.07
ACGTcount: A:0.20, C:0.12, G:0.34, T:0.33
Consensus pattern (42 bp):
TGTTTGGCTGCAGGATATGGGCATTCTAGGCTGGAATAGAAC
Found at i:5011562 original size:6 final size:6
Alignment explanation
Indices: 5011546--5011617 Score: 85
Period size: 6 Copynumber: 11.7 Consensus size: 6
5011536 ATATTTAACT
*
5011546 AAAAT- AAAATA AAAATA AAAA-A AATAATA AATAATAA AAGAAAA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AA-AATA AA-AAT-A AA-AATA AAAATA
5011596 AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAA
5011618 GAAAGATTGG
Statistics
Matches: 60, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
5 8 0.13
6 37 0.62
7 10 0.17
8 5 0.08
ACGTcount: A:0.83, C:0.00, G:0.01, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:5011598 original size:33 final size:33
Alignment explanation
Indices: 5011556--5011621 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
5011546 AAAATAAAAT
5011556 AAAAATAAAAA-AAATAATAAATAAT-AAAAGAAA
1 AAAAATAAAAATAAA-AATAAA-AATAAAAAGAAA
5011589 AAAAATAAAAATAAAAATAAAAATAAAAAGAAA
1 AAAAATAAAAATAAAAATAAAAATAAAAAGAAA
5011622 GATTGGGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 3 0.10
33 25 0.81
34 3 0.10
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (33 bp):
AAAAATAAAAATAAAAATAAAAATAAAAAGAAA
Found at i:5024267 original size:89 final size:88
Alignment explanation
Indices: 5024161--5024322 Score: 247
Period size: 89 Copynumber: 1.8 Consensus size: 88
5024151 TTTATTTTAA
*
5024161 TTTTATTTCACATTATATTATCCTTTAAAGATTTCA-CCTTT-AAATTTTAAAAATTTACATTTA
1 TTTTATTTAACATTATATTATCCTTTAAAGATTT-AGCCTTTAAAATTTT-AAAATTTACATTTA
5024224 TCAAACTAACTATTTTTTTTCAATTG
64 TCAAAC-AACTATTTTTTTTCAATTG
* * *
5024250 TTTTATTTAACATTATATTATCTTTTAAATATTTAGCCTTTAAAATTTTAAAATTTAGATTTATC
1 TTTTATTTAACATTATATTATCCTTTAAAGATTTAGCCTTTAAAATTTTAAAATTTACATTTATC
5024315 AAACAACT
66 AAACAACT
5024323 TAACTATATT
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
88 5 0.07
89 55 0.82
90 7 0.10
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (88 bp):
TTTTATTTAACATTATATTATCCTTTAAAGATTTAGCCTTTAAAATTTTAAAATTTACATTTATC
AAACAACTATTTTTTTTCAATTG
Found at i:5028366 original size:8 final size:8
Alignment explanation
Indices: 5028353--5028378 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
5028343 AAAGAAAGAT
5028353 AAAAAATA
1 AAAAAATA
5028361 AAAAAATA
1 AAAAAATA
5028369 AAAAAATA
1 AAAAAATA
5028377 AA
1 AA
5028379 CTCAATGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAATA
Found at i:5028521 original size:17 final size:17
Alignment explanation
Indices: 5028496--5028534 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
5028486 TAAAAAAAGT
*
5028496 ATATAA-AAAAT-TAAA
1 ATATAAGAAAATGAAAA
5028511 ATATAAGAAAATGAAAA
1 ATATAAGAAAATGAAAA
5028528 ATATAAG
1 ATATAAG
5028535 TATAAGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.29
16 5 0.24
17 10 0.48
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (17 bp):
ATATAAGAAAATGAAAA
Found at i:5028596 original size:22 final size:20
Alignment explanation
Indices: 5028566--5028617 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
5028556 AATTAATTAG
*
5028566 TAAAATAAAAATAAATAATA
1 TAAAATAAAAATAAATAAAA
5028586 TAACAATTAAAAATAAATAAAA
1 TAA-AA-TAAAAATAAATAAAA
5028608 TAAAATAAAA
1 TAAAATAAAA
5028618 TTGGGGTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 8 0.28
21 4 0.14
22 17 0.59
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAAATAAAAATAAATAAAA
Found at i:5030699 original size:40 final size:40
Alignment explanation
Indices: 5030654--5030820 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
5030644 CGGAATATAA
5030654 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
5030694 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
5030734 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
5030774 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
5030813 CCGGATAT
1 CCGGATAT
5030821 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:5030804 original size:80 final size:79
Alignment explanation
Indices: 5030670--5030820 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
5030660 ATAATCACGT
*
5030670 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
5030735 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
5030750 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
5030813 CCGGATAT
64 CCGGATAT
5030821 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:5038687 original size:40 final size:40
Alignment explanation
Indices: 5038642--5038808 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
5038632 CGGAATATAA
5038642 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
5038682 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
5038722 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
5038762 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
5038801 CCGGATAT
1 CCGGATAT
5038809 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:5038792 original size:80 final size:79
Alignment explanation
Indices: 5038658--5038808 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
5038648 ATAATCACGT
*
5038658 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
5038723 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
5038738 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
5038801 CCGGATAT
64 CCGGATAT
5038809 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:5042772 original size:46 final size:46
Alignment explanation
Indices: 5042705--5042921 Score: 292
Period size: 46 Copynumber: 4.7 Consensus size: 46
5042695 TGGCAACCTG
*
5042705 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
5042751 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
5042797 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATTAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** *
5042843 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* * * * *
5042889 TGAGTAAGATCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
5042922 TCACGTCAAA
Statistics
Matches: 154, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 154 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:5042907 original size:138 final size:130
Alignment explanation
Indices: 5042656--5042921 Score: 347
Period size: 138 Copynumber: 2.0 Consensus size: 130
5042646 AGTGTGCTCT
5042656 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
* * * * *
5042721 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
* *
5042786 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACAT-TAAAAGAATAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---TGT----G--TAA
*
5042850 GACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGATCATAGTTGAAAGACA
57 GACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAAGACA
*
5042914 CTATGGCA
121 CCATGGCA
5042922 TCACGTCAAA
Statistics
Matches: 117, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
130 47 0.40
132 1 0.01
133 1 0.01
136 1 0.01
137 1 0.01
138 66 0.56
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:5043224 original size:23 final size:25
Alignment explanation
Indices: 5043182--5043228 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
5043172 AATAAATATA
5043182 CATAAAATATATGGAAATAATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
5043207 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
5043229 ATGAATGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
24 1 0.05
25 10 0.48
ACGTcount: A:0.55, C:0.04, G:0.13, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:5053470 original size:7 final size:7
Alignment explanation
Indices: 5053453--5053491 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
5053443 TCAAGTCTTT
5053453 TTTTTTC
1 TTTTTTC
5053460 -TTTTTC
1 TTTTTTC
*
5053466 TTTTTTT
1 TTTTTTC
5053473 TTTTTTC
1 TTTTTTC
5053480 TTTTTTCC
1 TTTTTT-C
5053488 TTTT
1 TTTT
5053492 GGTGCAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 6 0.21
7 17 0.61
8 5 0.18
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTC
Found at i:5053471 original size:14 final size:14
Alignment explanation
Indices: 5053452--5053491 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
5053442 TTCAAGTCTT
5053452 TTTTTTTCTTTTTC
1 TTTTTTTCTTTTTC
*
5053466 TTTTTTTTTTTTTC
1 TTTTTTTCTTTTTC
*
5053480 TTTTTTCCTTTT
1 TTTTTTTCTTTT
5053492 GGTGCAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTTTCTTTTTC
Found at i:5055367 original size:30 final size:30
Alignment explanation
Indices: 5055326--5055384 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
5055316 AATTAAGGCC
5055326 AAATCTTTCAAAAATGAT-AAATAAGAGTA
1 AAATCTTTCAAAAATGATCAAATAAGAGTA
*
5055355 AAATCTTTTCAAAAATGTTCAAATAAGAGT
1 AAATC-TTTCAAAAATGATCAAATAAGAGT
5055385 TTATATCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 5 0.19
30 12 0.44
31 10 0.37
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (30 bp):
AAATCTTTCAAAAATGATCAAATAAGAGTA
Found at i:5056730 original size:31 final size:31
Alignment explanation
Indices: 5056679--5056816 Score: 124
Period size: 31 Copynumber: 4.5 Consensus size: 31
5056669 CCCCCCCCAA
* * *
5056679 AAGTTTAAGTACCAACTTAAGAGAAAGTGTC
1 AAGTTTAGGTACCAAATTAAGAAAAAGTGTC
*
5056710 AAGTTTAGGTATCAAATTAAGAAAAAGTGTC
1 AAGTTTAGGTACCAAATTAAGAAAAAGTGTC
* **
5056741 AAGTTTGGGTACCAAATT-AGACCAAAA---AA
1 AAGTTTAGGTACCAAATTAAGA--AAAAGTGTC
* * *
5056770 AAGTTTAGGTACTAAATTAGGAAAAGGTGTC
1 AAGTTTAGGTACCAAATTAAGAAAAAGTGTC
*
5056801 AA-TTTAGATACCAAAT
1 AAGTTTAGGTACCAAAT
5056817 GTTATATTAA
Statistics
Matches: 85, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
28 3 0.04
29 16 0.19
30 17 0.20
31 45 0.53
32 4 0.05
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (31 bp):
AAGTTTAGGTACCAAATTAAGAAAAAGTGTC
Found at i:5065775 original size:20 final size:21
Alignment explanation
Indices: 5065730--5065775 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
5065720 ATATTTATTC
*
5065730 AAAATTATTTCAAAAATAAAT
1 AAAATTATTTCAAAAATAAAG
*
5065751 CAAATT-TTTCAAAAGA-AAAG
1 AAAATTATTTCAAAA-ATAAAG
5065771 AAAAT
1 AAAAT
5065776 AAGATATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.61, C:0.07, G:0.04, T:0.28
Consensus pattern (21 bp):
AAAATTATTTCAAAAATAAAG
Found at i:5066573 original size:5 final size:5
Alignment explanation
Indices: 5066565--5066591 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
5066555 CAACAAAAAC
5066565 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
5066592 TACTGCAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:5069102 original size:31 final size:31
Alignment explanation
Indices: 5069067--5069140 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
5069057 GAAATATTTT
5069067 TTAAAAATATATA-AAAT-TATTATATTTTAAA
1 TTAAAAATA-ATAGAAATATA-TATATTTTAAA
*
5069098 TTAAAAATAATAGAAATATATATTTTTTAAA
1 TTAAAAATAATAGAAATATATATATTTTAAA
*
5069129 TAAAAGAATAAT
1 TTAAA-AATAAT
5069141 TAAAAACAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
30 3 0.08
31 27 0.71
32 8 0.21
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (31 bp):
TTAAAAATAATAGAAATATATATATTTTAAA
Found at i:5072399 original size:27 final size:24
Alignment explanation
Indices: 5072348--5072396 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
5072338 AAAAAATGTG
*
5072348 ATATAAAAACATATGTACATAATA
1 ATATAAAAACATATATACATAATA
*
5072372 ATATGAAAAACATATATATATAATA
1 ATAT-AAAAACATATATACATAATA
5072397 TAACATTAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (24 bp):
ATATAAAAACATATATACATAATA
Found at i:5072539 original size:3 final size:3
Alignment explanation
Indices: 5072533--5072573 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
5072523 ATAAAACATA
5072533 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
5072574 ATAATAATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:5072578 original size:3 final size:3
Alignment explanation
Indices: 5072572--5072613 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
5072562 CTACTACTAC
5072572 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5072614 GGATAATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:5072776 original size:25 final size:26
Alignment explanation
Indices: 5072743--5072791 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
5072733 TAAAGGATGT
5072743 ATAACTAATGATAC-TAAAATATATGC
1 ATAACTAAT-ATACGTAAAATATATGC
5072769 ATAA-TAATATACGTAAAATATAT
1 ATAACTAATATACGTAAAATATAT
5072792 ACACAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.18
25 14 0.64
26 4 0.18
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (26 bp):
ATAACTAATATACGTAAAATATATGC
Found at i:5072799 original size:25 final size:25
Alignment explanation
Indices: 5072748--5072799 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
5072738 GATGTATAAC
* *
5072748 TAATGATACTAAAATATATGCATAA
1 TAATGATACTAAAATATATACACAA
5072773 TAAT-ATACGTAAAATATATACACAA
1 TAATGATAC-TAAAATATATACACAA
5072798 TA
1 TA
5072800 TAGTTATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.31
Consensus pattern (25 bp):
TAATGATACTAAAATATATACACAA
Found at i:5077175 original size:21 final size:21
Alignment explanation
Indices: 5077149--5077198 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
5077139 TTTTGAAAAG
5077149 TTAGTTTTATTTTATCTTAGT
1 TTAGTTTTATTTTATCTTAGT
*
5077170 TTAGTTTTATTTTATCTTATT
1 TTAGTTTTATTTTATCTTAGT
*
5077191 TTAATTTT
1 TTAGTTTT
5077199 TAAATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.20, C:0.04, G:0.06, T:0.70
Consensus pattern (21 bp):
TTAGTTTTATTTTATCTTAGT
Found at i:5077189 original size:10 final size:10
Alignment explanation
Indices: 5077155--5077193 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
5077145 AAAGTTAGTT
5077155 TTATTTTATC
1 TTATTTTATC
* *
5077165 TTAGTTTAGTT
1 TTATTTTA-TC
5077176 TTATTTTATC
1 TTATTTTATC
5077186 TTATTTTA
1 TTATTTTA
5077194 ATTTTTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (10 bp):
TTATTTTATC
Found at i:5079095 original size:46 final size:44
Alignment explanation
Indices: 5079036--5079150 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
5079026 ACAGGACAGA
* *
5079036 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
5079082 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
5079126 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
5079151 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:5079131 original size:44 final size:45
Alignment explanation
Indices: 5079036--5079169 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
5079026 ACAGGACAGA
* *
5079036 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
5079082 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
5079126 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
5079170 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:5086372 original size:46 final size:44
Alignment explanation
Indices: 5086313--5086427 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
5086303 ACAGGACAGA
* *
5086313 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
5086359 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
5086403 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
5086428 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:5086408 original size:44 final size:45
Alignment explanation
Indices: 5086313--5086446 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
5086303 ACAGGACAGA
* *
5086313 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
5086359 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
5086403 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
5086447 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:5094617 original size:2 final size:2
Alignment explanation
Indices: 5094610--5094659 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
5094600 GTTTCTTTGA
*
5094610 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC CC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
5094652 TC TC TC TC
1 TC TC TC TC
5094660 ATTTTCTCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:5107573 original size:24 final size:24
Alignment explanation
Indices: 5107545--5107591 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
5107535 TTATTTTAGA
*
5107545 TTGTTTTTTTTACATCTTGTATTT
1 TTGTTTTTTTTACATCATGTATTT
5107569 TTGTTTTTTTTACATCATGTATT
1 TTGTTTTTTTTACATCATGTATT
5107592 CTATTTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.15, C:0.09, G:0.09, T:0.68
Consensus pattern (24 bp):
TTGTTTTTTTTACATCATGTATTT
Found at i:5119671 original size:75 final size:74
Alignment explanation
Indices: 5119587--5119963 Score: 291
Period size: 75 Copynumber: 4.9 Consensus size: 74
5119577 TCATTTCTGT
*
5119587 TTTCAAAAAATCAACTCATAATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTTT
1 TTTCAAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTT
*
5119652 TAGATT-CTAC
65 CA-ATTACTAC
* * * * *
5119662 TTTCAAAAAAATCAACTTATATTGAGAAAGGTGAGTTGAGCCT-TGGCTCACG-TGTAGAGTCAC
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-GCACGCTG-AG-GT-A-
* **
5119725 TTTCAATTTCTATTTTTATGTC
60 -TT---TTTCAATTACTA---C
**** * *
5119747 TGTTTTCTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGTACGCTGAGGTA-TTTT
1 T-TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTT
* **
5119811 CAATTATTGT
65 CAATTACTAC
* *
5119821 TTGTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTA-TTT
1 TT-TC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTT
**
5119885 TCAATTACTGT
64 TCAATTACTAC
* * * *
5119896 TTGTC-AAAAATCAACTTATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTA-TTTT
1 TT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTT
5119959 CAATT
65 CAATT
5119964 TCTATTTTTC
Statistics
Matches: 247, Mismatches: 36, Indels: 40
0.76 0.11 0.12
Matches are distributed among these distances:
73 58 0.23
74 5 0.02
75 99 0.40
76 16 0.06
77 10 0.04
79 2 0.01
80 1 0.00
81 3 0.01
82 5 0.02
83 1 0.00
84 2 0.01
85 39 0.16
86 6 0.02
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (74 bp):
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTTC
AATTACTAC
Found at i:5119950 original size:73 final size:74
Alignment explanation
Indices: 5119755--5120197 Score: 339
Period size: 73 Copynumber: 5.8 Consensus size: 74
5119745 TCTGTTTTCT
* *
5119755 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGTACGCTGAGGTATTTTCAATTATTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTG
5119820 TTTGTCAAAA
66 TTTGTC-AAA
*
5119830 AAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTG
5119895 TTTGTC-AA
66 TTTGTCAAA
* * * * * * *
5119903 AAATCAACTTATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTCTA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTG
*
5119968 TTTTTCAATTTATATTTTCAA
66 TTTGTC-------A-----AA
* ** * * **
5119989 AAATCAATTCATATTGTTAAAGGTGAATTGAGCCTCGGGTCGCAAAAC-GAGGTATTTTCAATTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--GC-ACGCTGAGGTATTTTCAA-TT
5120053 A-TGTTT-TC--A
62 ACTGTTTGTCAAA
* * * * * *
5120062 AAATCAATTCATATTGCTAGAGGTGAATTAAGCCTCGGGTCAC-ATAACGAGGTATTTTCAATTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT---GAGGTATTTTCAA-TT
5120126 A-TGTTT-TC-AA
62 ACTGTTTGTCAAA
* * * * * *
5120136 AAATCAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGTCATACGCCGAGGTATTTTCAAT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGC--ACGCTGAGGTATTTTCAAT
5120198 AGATGTTTTT
Statistics
Matches: 308, Mismatches: 35, Indels: 52
0.78 0.09 0.13
Matches are distributed among these distances:
70 1 0.00
71 1 0.00
73 126 0.41
74 53 0.17
75 68 0.22
76 2 0.01
86 33 0.11
87 2 0.01
88 18 0.06
89 4 0.01
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.34
Consensus pattern (74 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTG
TTTGTCAAA
Found at i:5119971 original size:13 final size:13
Alignment explanation
Indices: 5119953--5119988 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
5119943 CATGCTGAGG
*
5119953 TATTTTCAATTTC
1 TATTTTCAATTTA
5119966 TATTTTTCAATTTA
1 TA-TTTTCAATTTA
5119980 TATTTTCAA
1 TATTTTCAA
5119989 AAATCAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTTTCAATTTA
Found at i:5120187 original size:74 final size:74
Alignment explanation
Indices: 5119969--5120206 Score: 352
Period size: 74 Copynumber: 3.2 Consensus size: 74
5119959 CAATTTCTAT
* * * *
5119969 TTTTCAATTTATATTTTCAAAAATCAATTCATATTGTTAAAGGTGAATTGAGCCTCGGGTCGCAA
1 TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAGAGGTGAATTGAGCCTCGGGTCACAA
5120034 AACGAGGTA
66 AACGAGGTA
* *
5120043 TTTTCAATTTATGTTTTC-AAAATCAATTCATATTGCTAGAGGTGAATTAAGCCTCGGGTCACAT
1 TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAGAGGTGAATTGAGCCTCGGGTCACAA
5120107 AACGAGGTA
66 AACGAGGTA
* * *
5120116 TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGTCATAC
1 TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAGAGGTGAATTGAGCCTCGGGTCACAA
**
5120181 GCCGAGGTA
66 AACGAGGTA
**
5120190 TTTTCAATAGATGTTTT
1 TTTTCAATTTATGTTTT
5120207 TTTCAATTTC
Statistics
Matches: 149, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
73 68 0.46
74 81 0.54
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (74 bp):
TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAGAGGTGAATTGAGCCTCGGGTCACAA
AACGAGGTA
Found at i:5120396 original size:14 final size:14
Alignment explanation
Indices: 5120364--5120413 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
5120354 CGTTGAGGTA
* *
5120364 TTTTCAATTTTTGTT
1 TTTTCAATTTATG-C
5120379 TTTTCAATTTATGC
1 TTTTCAATTTATGC
* *
5120393 TTTTCAAATTCTGC
1 TTTTCAATTTATGC
5120407 TTTTCAA
1 TTTTCAA
5120414 AAAAATCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 19 0.61
15 12 0.39
ACGTcount: A:0.20, C:0.14, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTATGC
Found at i:5120396 original size:15 final size:15
Alignment explanation
Indices: 5120364--5120410 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
5120354 CGTTGAGGTA
* *
5120364 TTTTCAATTTTTGTT
1 TTTTCAATTTATGCT
5120379 TTTTCAATTTATGC-
1 TTTTCAATTTATGCT
* *
5120393 TTTTCAAATTCTGCT
1 TTTTCAATTTATGCT
5120408 TTT
1 TTT
5120411 CAAAAAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.17, C:0.13, G:0.06, T:0.64
Consensus pattern (15 bp):
TTTTCAATTTATGCT
Found at i:5120560 original size:88 final size:90
Alignment explanation
Indices: 5120390--5120560 Score: 231
Period size: 88 Copynumber: 1.9 Consensus size: 90
5120380 TTTCAATTTA
** * * * *
5120390 TGCTTTTCAAATTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
1 TGCTTTTCAAATTAAGC-TTTCAAAAAAACCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGC
*
5120455 TCACATGTCGAGGTATTTTCAAAATC
65 TCACATGTCGAGCTATTTTCAAAATC
*
5120481 TGCTTTTCAAATTAAG-TTTC-AAAAAACCAACTCATATTGAGAGAGGTGAGTTGAGCCTTAGCT
1 TGCTTTTCAAATTAAGCTTTCAAAAAAACCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGCT
5120544 CACATG-CTGAGCTATTT
66 CACATGTC-GAGCTATTT
5120561 CTGTTTTAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
87 1 0.01
88 52 0.73
89 4 0.06
91 14 0.20
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (90 bp):
TGCTTTTCAAATTAAGCTTTCAAAAAAACCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGCT
CACATGTCGAGCTATTTTCAAAATC
Found at i:5120759 original size:59 final size:59
Alignment explanation
Indices: 5120696--5120976 Score: 191
Period size: 52 Copynumber: 5.0 Consensus size: 59
5120686 CCCTTCTACT
* *
5120696 TGAATTCTAAGTCCTTAAAGTTTCAGTAGAGAAGATCAAAACTACAAATCTCTTCTCCC
1 TGAATTCTAAGTCCTTGAAGTTTCAGTAGAGAAGATCGAAACTACAAATCTCTTCTCCC
* ** ** * * *
5120755 TGAA-TC----TCC--GAAGTTTCAGT-GTAGTAGGCCGAGGCTACAAATCCCTTCTACT
1 TGAATTCTAAGTCCTTGAAGTTTCAGTAG-AGAAGATCGAAACTACAAATCTCTTCTCCC
* * *
5120807 TGAATTGTAAGTCCTTGAAGTTTCAGCAGAGAAGATCGAAACTACAAATCTCGTCTCCC
1 TGAATTCTAAGTCCTTGAAGTTTCAGTAGAGAAGATCGAAACTACAAATCTCTTCTCCC
* * ** ** * * * *
5120866 TTAA-TC----TCC--GAAGTTTCAGT-GTAGTAGGCCGAGGCTGCAAATCCCTTCTACT
1 TGAATTCTAAGTCCTTGAAGTTTCAGTAG-AGAAGATCGAAACTACAAATCTCTTCTCCC
** *
5120918 TGAATTCTAAGTCCTTGAAGTTT-AGTAGAGAAGATCGAGGCTACAAATATCTTCTCCC
1 TGAATTCTAAGTCCTTGAAGTTTCAGTAGAGAAGATCGAAACTACAAATCTCTTCTCCC
5120976 T
1 T
5120977 CAATCTCAGA
Statistics
Matches: 161, Mismatches: 43, Indels: 37
0.67 0.18 0.15
Matches are distributed among these distances:
51 2 0.01
52 68 0.42
53 3 0.02
54 6 0.04
57 6 0.04
58 29 0.18
59 46 0.29
60 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (59 bp):
TGAATTCTAAGTCCTTGAAGTTTCAGTAGAGAAGATCGAAACTACAAATCTCTTCTCCC
Found at i:5120880 original size:111 final size:111
Alignment explanation
Indices: 5120686--5121001 Score: 499
Period size: 111 Copynumber: 2.9 Consensus size: 111
5120676 GATTTTATAA
* *
5120686 CCCTTCTACTTGAATTCTAAGTCCTTAAAGTTTCAGTAGAGAAGATCAAAACTACAAATCTCTTC
1 CCCTTCTACTTGAATTCTAAGTCCTTGAAGTTTCAGTAGAGAAGATCGAAACTACAAATCTCTTC
*
5120751 TCCCTGAATCTCCGAAGTTTCAGTGTAGTAGGCCGAGGCTACAAAT
66 TCCCTCAATCTCCGAAGTTTCAGTGTAGTAGGCCGAGGCTACAAAT
* * *
5120797 CCCTTCTACTTGAATTGTAAGTCCTTGAAGTTTCAGCAGAGAAGATCGAAACTACAAATCTCGTC
1 CCCTTCTACTTGAATTCTAAGTCCTTGAAGTTTCAGTAGAGAAGATCGAAACTACAAATCTCTTC
* *
5120862 TCCCTTAATCTCCGAAGTTTCAGTGTAGTAGGCCGAGGCTGCAAAT
66 TCCCTCAATCTCCGAAGTTTCAGTGTAGTAGGCCGAGGCTACAAAT
** *
5120908 CCCTTCTACTTGAATTCTAAGTCCTTGAAGTTT-AGTAGAGAAGATCGAGGCTACAAATATCTTC
1 CCCTTCTACTTGAATTCTAAGTCCTTGAAGTTTCAGTAGAGAAGATCGAAACTACAAATCTCTTC
* * *
5120972 TCCCTCAATCTCAGAAGTTCCAGTGGAGTA
66 TCCCTCAATCTCCGAAGTTTCAGTGTAGTA
5121002 AATCATGGCT
Statistics
Matches: 188, Mismatches: 17, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
110 52 0.28
111 136 0.72
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (111 bp):
CCCTTCTACTTGAATTCTAAGTCCTTGAAGTTTCAGTAGAGAAGATCGAAACTACAAATCTCTTC
TCCCTCAATCTCCGAAGTTTCAGTGTAGTAGGCCGAGGCTACAAAT
Found at i:5121963 original size:16 final size:16
Alignment explanation
Indices: 5121942--5121972 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5121932 CTTTTCAAAT
*
5121942 TTTTTTTTAAAAAACG
1 TTTTTTTAAAAAAACG
5121958 TTTTTTTAAAAAAAC
1 TTTTTTTAAAAAAAC
5121973 AAGAGAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (16 bp):
TTTTTTTAAAAAAACG
Found at i:5124431 original size:23 final size:23
Alignment explanation
Indices: 5124388--5124431 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
5124378 ATATATTTAC
* *
5124388 TTCATTTTTTATACATTATTAAT
1 TTCATTTTTTATAAATAATTAAT
5124411 TTCATTTTTT-TCAAATAATTA
1 TTCATTTTTTAT-AAATAATTA
5124432 TACCCAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.06
23 17 0.94
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (23 bp):
TTCATTTTTTATAAATAATTAAT
Found at i:5128349 original size:2 final size:2
Alignment explanation
Indices: 5128342--5128375 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
5128332 TATTATGAGC
5128342 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
5128376 TAATGAAGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5128486 original size:12 final size:12
Alignment explanation
Indices: 5128471--5128507 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
5128461 CAAATTTTCT
5128471 TTAAATTTTTAA
1 TTAAATTTTTAA
5128483 TTAAATTTTT--
1 TTAAATTTTTAA
*
5128493 TTAAAATTTTAA
1 TTAAATTTTTAA
5128505 TTA
1 TTA
5128508 GACTCTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
10 9 0.41
12 13 0.59
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTAAATTTTTAA
Found at i:5128502 original size:22 final size:23
Alignment explanation
Indices: 5128462--5128507 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
5128452 GTTAAACTTC
*
5128462 AAATTTTCTTTAAATTTTTAATT
1 AAATTTTCTTTAAAATTTTAATT
5128485 AAATTTT-TTTAAAATTTTAATT
1 AAATTTTCTTTAAAATTTTAATT
5128507 A
1 A
5128508 GACTCTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
AAATTTTCTTTAAAATTTTAATT
Found at i:5136574 original size:11 final size:11
Alignment explanation
Indices: 5136558--5136582 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5136548 CACTAGCGAG
5136558 ATGCTTAAAAA
1 ATGCTTAAAAA
5136569 ATGCTTAAAAA
1 ATGCTTAAAAA
5136580 ATG
1 ATG
5136583 TATATATCAT
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:0.52, C:0.08, G:0.12, T:0.28
Consensus pattern (11 bp):
ATGCTTAAAAA
Found at i:5140849 original size:2 final size:2
Alignment explanation
Indices: 5140802--5140830 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5140792 TAATATATGG
5140802 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5140831 TTTAAAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5142083 original size:3 final size:3
Alignment explanation
Indices: 5142075--5142130 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
5142065 ATCCATTTCC
5142075 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5142123 TAA TAA TA
1 TAA TAA TA
5142131 GAATTTTGAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:5143003 original size:19 final size:18
Alignment explanation
Indices: 5142979--5143022 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
5142969 ACTTTGCTAC
5142979 TTGATTAAATTAAATTAAA
1 TTGATTAAATTAAATT-AA
*
5142998 TTGATTAAATTAAATTGA
1 TTGATTAAATTAAATTAA
5143016 TTGATTA
1 TTGATTA
5143023 CATTGTATGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (18 bp):
TTGATTAAATTAAATTAA
Found at i:5143006 original size:14 final size:14
Alignment explanation
Indices: 5142987--5143017 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
5142977 ACTTGATTAA
5142987 ATTAAATTAAATTG
1 ATTAAATTAAATTG
5143001 ATTAAATTAAATTG
1 ATTAAATTAAATTG
5143015 ATT
1 ATT
5143018 GATTACATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (14 bp):
ATTAAATTAAATTG
Found at i:5145357 original size:22 final size:22
Alignment explanation
Indices: 5145305--5145358 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 22
5145295 ATATAATCAC
* *
5145305 AAATAATACATATATAAATTAA
1 AAATAAAATATATATAAATTAA
* * *
5145327 AAATCAAATATATCTAAATTTA
1 AAATAAAATATATATAAATTAA
*
5145349 AATTAAAATA
1 AAATAAAATA
5145359 AACACTTATA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATAAAATATATATAAATTAA
Found at i:5147600 original size:31 final size:30
Alignment explanation
Indices: 5147549--5147618 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
5147539 TTAAATGAGT
* **
5147549 AATAATAAAATTATTTTTTAATTTTTTAAGA
1 AATAATAAAATTATTATTTAATCCTTTAA-A
5147580 AATAATAAAATT-TTGATTTAATCCTTTAAA
1 AATAATAAAATTATT-ATTTAATCCTTTAAA
5147610 AAT-ATAAAA
1 AATAATAAAA
5147619 ATATAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.17
30 6 0.17
31 23 0.66
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (30 bp):
AATAATAAAATTATTATTTAATCCTTTAAA
Found at i:5147633 original size:24 final size:23
Alignment explanation
Indices: 5147604--5147671 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 23
5147594 GATTTAATCC
5147604 TTTAAAAATATAAAAATATAAAT
1 TTTAAAAATATAAAAATATAAAT
* *
5147627 TATTAAAAA-ATAAAATTAT-ACT
1 T-TTAAAAATATAAAAATATAAAT
*
5147649 TTTAATAACATATAAATATATAA
1 TTTAA-AA-ATATAAAAATATAA
5147672 TTTAATTTCG
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
21 4 0.11
22 5 0.14
23 11 0.31
24 15 0.42
25 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (23 bp):
TTTAAAAATATAAAAATATAAAT
Found at i:5149103 original size:33 final size:31
Alignment explanation
Indices: 5149053--5149115 Score: 90
Period size: 33 Copynumber: 2.0 Consensus size: 31
5149043 GAGTTTTTAA
5149053 ATTTTATAAATAAAATAAAAAATTAATAAAT
1 ATTTTATAAATAAAATAAAAAATTAATAAAT
* *
5149084 ATTTTATAAAAATATAATAAAATATTAATAAA
1 ATTTTAT--AAATAAAATAAAAAATTAATAAA
5149116 ATAAATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 7 0.25
33 21 0.75
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (31 bp):
ATTTTATAAATAAAATAAAAAATTAATAAAT
Found at i:5149117 original size:11 final size:11
Alignment explanation
Indices: 5149066--5149118 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
5149056 TTATAAATAA
*
5149066 AATAAAAAATT
1 AATAAAATATT
5149077 AAT-AAATATTT
1 AATAAAATA-TT
*
5149088 TATAAAA-ATAT
1 AATAAAATAT-T
5149099 AATAAAATATT
1 AATAAAATATT
5149110 AATAAAATA
1 AATAAAATA
5149119 AATATTACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 5 0.14
11 25 0.71
12 5 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AATAAAATATT
Found at i:5149473 original size:23 final size:24
Alignment explanation
Indices: 5149447--5149499 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
5149437 CCTAATTTAA
**
5149447 ATTTAATTTTTAAAATTT-GAATT
1 ATTTAATTGATAAAATTTAGAATT
*
5149470 ATTTAA-TGATAATATTTAGAATT
1 ATTTAATTGATAAAATTTAGAATT
5149493 ATTTAAT
1 ATTTAAT
5149500 ATAATATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (24 bp):
ATTTAATTGATAAAATTTAGAATT
Found at i:5149503 original size:22 final size:22
Alignment explanation
Indices: 5149461--5149508 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
5149451 AATTTTTAAA
5149461 ATTTGAATTATTTAATGATAAT
1 ATTTGAATTATTTAATGATAAT
5149483 ATTTAGAATTATTTAAT-ATAAT
1 ATTT-GAATTATTTAATGATAAT
5149505 ATTT
1 ATTT
5149509 TTAAAAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (22 bp):
ATTTGAATTATTTAATGATAAT
Found at i:5152265 original size:4 final size:4
Alignment explanation
Indices: 5152256--5152282 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
5152246 CAAACACAAA
5152256 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
5152283 AACCTTGGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:5152363 original size:22 final size:22
Alignment explanation
Indices: 5152323--5152364 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
5152313 TGGCCACCCA
*
5152323 CCTTGGCCACCAACTCCACCAC
1 CCTTGGCCACCAACACCACCAC
5152345 CCTTGGCCACCTAA-ACCACC
1 CCTTGGCCACC-AACACCACC
5152365 CCAACCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.52, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCAACACCACCAC
Found at i:5152488 original size:23 final size:23
Alignment explanation
Indices: 5152430--5152510 Score: 74
Period size: 23 Copynumber: 3.4 Consensus size: 23
5152420 AGGGGGTGGG
*
5152430 TTTTTGGTTTTTTGGAGAAGGATT
1 TTTTTGTTTTTTTGGAGAAGG-TT
* * * *
5152454 GTTCT-TTGTTTTGGAGGAGGTT
1 TTTTTGTTTTTTTGGAGAAGGTT
5152476 TTTTTGTTTTTTTGGAAAGAAGGTT
1 TTTTTGTTTTTTTGG--AGAAGGTT
5152501 ATTTTTGTTT
1 -TTTTTGTTT
5152511 CTTGGAAAGG
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
22 5 0.11
23 20 0.45
24 3 0.07
25 7 0.16
26 9 0.20
ACGTcount: A:0.15, C:0.01, G:0.27, T:0.57
Consensus pattern (23 bp):
TTTTTGTTTTTTTGGAGAAGGTT
Found at i:5152505 original size:25 final size:25
Alignment explanation
Indices: 5152471--5152519 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
5152461 GTTTTGGAGG
*
5152471 AGGTT-TTTTTGTTTTTTTGGAAAGA
1 AGGTTATTTTTG-TTTCTTGGAAAGA
5152496 AGGTTATTTTTGTTTCTTGGAAAG
1 AGGTTATTTTTGTTTCTTGGAAAG
5152520 GCTAGTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.20, C:0.02, G:0.24, T:0.53
Consensus pattern (25 bp):
AGGTTATTTTTGTTTCTTGGAAAGA
Found at i:5152833 original size:3 final size:3
Alignment explanation
Indices: 5152819--5152900 Score: 64
Period size: 3 Copynumber: 27.3 Consensus size: 3
5152809 GAGCTTTGTT
* * *
5152819 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTC
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
*
5152863 TCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 TTA T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
5152901 ATATGCCCTC
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
2 6 0.10
3 50 0.79
4 7 0.11
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:5152904 original size:32 final size:32
Alignment explanation
Indices: 5152819--5152904 Score: 93
Period size: 35 Copynumber: 2.6 Consensus size: 32
5152809 GAGCTTTGTT
* * *
5152819 TTATTATTTTATTATTTTTACTATTATTTATA
1 TTATTATTATATTATATATACTATTATTTATA
*
5152851 TTATTATTAT-TCTCATGTATATATTATTATTTATA
1 TTATTATTATAT-T-A--TATATACTATTATTTATA
5152886 TTATTATTATATTATATAT
1 TTATTATTATATTATATAT
5152905 GCCCTCTCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
31 1 0.02
32 15 0.33
33 1 0.02
34 1 0.02
35 26 0.58
36 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (32 bp):
TTATTATTATATTATATATACTATTATTTATA
Found at i:5153155 original size:12 final size:12
Alignment explanation
Indices: 5153122--5153164 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
5153112 TATATTAGTG
* *
5153122 TATATTTTTATG
1 TATATTTATATA
*
5153134 TATATATATATA
1 TATATTTATATA
5153146 TATATTTATATA
1 TATATTTATATA
5153158 TAGTATT
1 TA-TATT
5153165 GTTTTTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
12 22 0.85
13 4 0.15
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (12 bp):
TATATTTATATA
Found at i:5153321 original size:125 final size:121
Alignment explanation
Indices: 5153101--5153323 Score: 304
Period size: 125 Copynumber: 1.8 Consensus size: 121
5153091 TTGCTATCAC
* * * *
5153101 TATTACTATTATATATTAGTGTATATTTTTATGTATATATATATATATATTTATATATAGTATTG
1 TATTACTATTATATAGTAGTGTATATTTTTATATACATATATATATATATTTATATATAGTATTA
* *
5153166 TTTTTTATTACTTTAATTTAATATTTTTATTATATTTGCTTTTTGTATTTCTATATT
66 TTGTTTATTACTTTAA-TTAATATTCTTATTATATTTGCTTTTTGTATTTCTATATT
* *
5153223 TATTATTATTATATAGTAGTGTGTATTTCTATTATATACATATATATATATATTTATATATAGTA
1 TATTACTATTATATAGTAGTGTATA-TT-T-TTATATACATATATATATATATTTATATATAGTA
*
5153288 TTATTGTTTACTTTACTTTAA-TATTATTCTTATTAT
63 TTATTGTTTA--TTACTTTAATTAATATTCTTATTAT
5153324 CATTATATCC
Statistics
Matches: 87, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
122 22 0.25
123 2 0.02
124 1 0.01
125 53 0.61
127 9 0.10
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (121 bp):
TATTACTATTATATAGTAGTGTATATTTTTATATACATATATATATATATTTATATATAGTATTA
TTGTTTATTACTTTAATTAATATTCTTATTATATTTGCTTTTTGTATTTCTATATT
Found at i:5157626 original size:9 final size:9
Alignment explanation
Indices: 5157607--5157653 Score: 69
Period size: 9 Copynumber: 5.3 Consensus size: 9
5157597 CTTTAAGACC
5157607 AAAAAAG-A
1 AAAAAAGAA
5157615 AAAAAAGAA
1 AAAAAAGAA
*
5157624 AAAAAAAAA
1 AAAAAAGAA
5157633 AAAAAAGAA
1 AAAAAAGAA
*
5157642 AAAGAAGAA
1 AAAAAAGAA
5157651 AAA
1 AAA
5157654 GGAGAGGCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
8 7 0.20
9 28 0.80
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:5157654 original size:9 final size:8
Alignment explanation
Indices: 5157607--5157654 Score: 62
Period size: 8 Copynumber: 5.9 Consensus size: 8
5157597 CTTTAAGACC
5157607 AAAAAAGA
1 AAAAAAGA
5157615 AAAAAAGA
1 AAAAAAGA
5157623 AAAAAA-A
1 AAAAAAGA
*
5157630 AAAAAAAA
1 AAAAAAGA
5157638 AGAAAAAGA
1 A-AAAAAGA
5157647 AGAAAAAG
1 A-AAAAAG
5157655 GAGAGGCTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
7 7 0.19
8 16 0.43
9 14 0.38
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:5158869 original size:66 final size:66
Alignment explanation
Indices: 5158769--5158895 Score: 227
Period size: 66 Copynumber: 1.9 Consensus size: 66
5158759 CATTCATATA
*
5158769 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACACATT
1 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
5158834 C
66 C
* *
5158835 ATAACACATCTGGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACA
1 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACA
5158896 TAAGCATAGA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (66 bp):
ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
C
Found at i:5159052 original size:44 final size:43
Alignment explanation
Indices: 5158959--5159855 Score: 513
Period size: 44 Copynumber: 20.7 Consensus size: 43
5158949 ATTCACAAGC
* * * *
5158959 CTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGGT
* * *
5159004 CTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGACGAAGGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAA-GGT
* * * * * * * *
5159048 CTTAAACCCCTAATCGGTAGGGTAATAGACCGAA-TTGTAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGGT
* * * *
5159090 CTTATCCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGGT
* * * * * *
5159133 CTTTAACCCCCTAAGTAGTAGGGTAACA-AGCTGAA-TTTACAAGC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGATGA-AGGT
* * * *
5159177 CTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGGT
* *
5159222 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAA-GGT
* * * * * * *
5159266 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGGT
* * * *
5159308 CTT-ATCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGGT
* * * * *
5159350 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCTGAA-TTTACAAGC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGATGA-AGGT
* * * *
5159394 CTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGGT
* *
5159439 CTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAA-GGT
* * * * * *
5159482 CTTAAACCCCTAATCGGTAGGGTAACAGATCGAA-TTGCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGGT
* * * * *
5159524 CTT-ATCCCCTAAGTAGTAGGGAAACAGAT-GAAGATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGGT
* * * * *
5159565 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTTACAAGC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGA-TCGAAGATGA-AGGT
* * * *
5159609 CTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGGT
* * * *
5159654 CTTAACCCTCTAAGCAGTAGGGAAACAGATCGAAGATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGGT
* * * * * *
5159697 CTTTAACCCCCTAAACAGTAGGGTAACA-AGCCAA-ATTTACAAGC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGA-AGGT
* * *
5159741 CTTAACCCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGGT
* * * * * * * *
5159786 CTTAACCCCTTAAGTAGTTGAGAAATA-ATCGAAGATGATGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGGT
* *
5159828 CTTAAACCCCTAAGTAGTAGGGTAACAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAG
5159856 GCTGGAAATT
Statistics
Matches: 652, Mismatches: 159, Indels: 84
0.73 0.18 0.09
Matches are distributed among these distances:
40 3 0.00
41 50 0.08
42 71 0.11
43 178 0.27
44 206 0.32
45 141 0.22
46 3 0.00
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGGT
Found at i:5159337 original size:85 final size:88
Alignment explanation
Indices: 5159177--5159768 Score: 404
Period size: 85 Copynumber: 6.8 Consensus size: 88
5159167 ATTTACAAGC
* *
5159177 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGATTTACAGATCTTAACCCCCTAAGCAGTAG
5159242 GGAAACAGATCGAAGACGAAGGG
66 GGAAACAGATCGAAGACGAAGGG
* * * *
5159265 TCTTAAACCCCTAATCGGTAGGGTAACAGACCG-A-A-TTGCAGATCTT-ATCCCCTAAGCAGTA
1 -CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGATTTACAGATCTTAACCCCCTAAGCAGTA
* *
5159326 GGGAAACAGATCGAAGATGATGGG
65 GGGAAACAGATCGAAGACGAAGGG
* * * *
5159350 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCTG-A-ATTTACA-AGCCTTAAACCCCTAAGCAG
1 C-TTAAACCCCTAAGCAGTAGGGTAACAGA-CCGAAGATTTACAGA-TCTTAACCCCCTAAGCAG
* * ** **
5159411 TAGGGTAACAG-GCTGAAGATTTACAGAT
63 TAGGGAAACAGATC-GAAGA-CGA-AGGG
* * ** * * * *
5159439 CTT-AACCCCTAAGCAGTAGGGAAACAGATCGAAGA-CGA-AGGGTCTTAAACCCCTAATCGGTA
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGATTTACA-GATCTTAACCCCCTAAGCAGTA
* ** * **
5159501 GGGTAACAGATCGAA-TTGCAGAT
65 GGGAAACAGATCGAAGACGAAGGG
* * * * * * **
5159524 CTT-ATCCCCTAAGTAGTAGGGAAACAGA-TGAAGA-TGA-TGGGCTTTAACCCCCTAAGCAGTA
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGATTTACAGATC-TTAACCCCCTAAGCAGTA
* * * *
5159585 GGGTAACA-AGCCGAATTTAC-AA-GC
65 GGGAAACAGA-TCGAA--GACGAAGGG
* * *
5159609 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCTCTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGATTTACAGATCTTAACCCCCTAAGCAGTAG
* *
5159674 GGAAACAGATCGAAGATGATGGG
66 GGAAACAGATCGAAGACGAAGGG
* * *
5159697 CTTTAACCCCCTAAACAGTAGGGTAACA-AGCC-AA-ATTTACA-AGCCTTAACCCCCTAAGCAG
1 C-TTAAACCCCTAAGCAGTAGGGTAACAGA-CCGAAGATTTACAGA-TCTTAACCCCCTAAGCAG
*
5159758 TAGGGTAACAG
63 TAGGGAAACAG
5159769 GCTGAAGATT
Statistics
Matches: 402, Mismatches: 72, Indels: 60
0.75 0.13 0.11
Matches are distributed among these distances:
83 4 0.01
84 36 0.09
85 97 0.24
86 43 0.11
87 91 0.23
88 71 0.18
89 60 0.15
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (88 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGATTTACAGATCTTAACCCCCTAAGCAGTAG
GGAAACAGATCGAAGACGAAGGG
Found at i:5159459 original size:131 final size:128
Alignment explanation
Indices: 5159266--5159508 Score: 344
Period size: 131 Copynumber: 1.9 Consensus size: 128
5159256 GACGAAGGGT
* * * *
5159266 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAATTGCAGATCTTATCCCCTAAGCAGTAGGGAA
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAATTACAGATCTTAACCCCTAAGCAGTAGGGAA
* * *
5159331 ACAGATCGAAGATGATGGG-CTTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAAGC
66 ACAGATCGAAGACGAAGGGTC-TTAAACCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAAGC
* *
5159394 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCTAAGCAGTAGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCG-A-A-TTACAGATCTTAACCCCTAAGCAGTAGG
* *
5159459 GAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACA
63 GAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACA
5159509 GATCGAATTG
Statistics
Matches: 100, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
128 28 0.28
129 1 0.01
130 1 0.01
131 69 0.69
132 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (128 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAATTACAGATCTTAACCCCTAAGCAGTAGGGAA
ACAGATCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAAGC
Found at i:5159669 original size:216 final size:217
Alignment explanation
Indices: 5158946--5159724 Score: 1393
Period size: 216 Copynumber: 3.6 Consensus size: 217
5158936 CTAGAATCAG
*
5158946 TGAATTCACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACC
1 TGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACC
* *
5159011 CCCTAAGTAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAATAG
66 CCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAG
*
5159076 ACCGAATTGTAGATCTTATCCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACC
131 ACCGAATTGCAGATCTTAT-CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACC
*
5159141 CCCTAAGTAGTAGGGTAACAAGC
195 CCCTAAGCAGTAGGGTAACAAGC
5159164 TGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACC
1 TGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACC
5159229 CCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAG
66 CCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAG
5159294 ACCGAATTGCAGATCTTATCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCC
131 ACCGAATTGCAGATCTTATCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCC
5159359 CCTAAGCAGTAGGGTAACAAGC
196 CCTAAGCAGTAGGGTAACAAGC
5159381 TGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAA-C
1 TGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACC
5159445 CCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAG
66 CCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAG
* *
5159510 ATCGAATTGCAGATCTTATCCCCTAAGTAGTAGGGAAACAGAT-GAAGATGATGGGCTTTAACCC
131 ACCGAATTGCAGATCTTATCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCC
5159574 CCTAAGCAGTAGGGTAACAAGC
196 CCTAAGCAGTAGGGTAACAAGC
*
5159596 CGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACC
1 TGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACC
* * * * * *
5159661 CTCTAAGCAGTAGGGAAACAGATCGAAGATGATGGG-CTTTAACCCCCTAAACAGTAGGGTAACA
66 CCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTC-TTAAACCCCTAATCGGTAGGGTAACA
5159725 AGCCAAATTT
Statistics
Matches: 545, Mismatches: 14, Indels: 6
0.96 0.02 0.01
Matches are distributed among these distances:
215 106 0.19
216 164 0.30
217 130 0.24
218 145 0.27
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (217 bp):
TGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACC
CCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAG
ACCGAATTGCAGATCTTATCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCC
CCTAAGCAGTAGGGTAACAAGC
Found at i:5159709 original size:132 final size:131
Alignment explanation
Indices: 5158947--5159854 Score: 608
Period size: 132 Copynumber: 7.0 Consensus size: 131
5158937 TAGAATCAGT
* *
5158947 GAATTCACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACA-GCTGAAGATTTACAGATCTTAA-CC
* * * * *
5159012 CCTAAGTAGTAGGGAAACAGATCGAAGACGAAGGG-TCTTAAACCCCTAATCGGTAGGGTAA-TA
64 CCTAAGTAGTAGGGAAACAGATCGAAGATGATGGGCT-TTAAACCCCTAAGCAGTAGGGTAACAA
5159075 GACC
128 GACC
* * * * * * * **
5159079 GAATTGTA-GA-TCTTATCCCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGA-TGGGCTTTAAC
1 GAATT-TACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGCT-GAAGATTTACAGATC-TTAA-
* * * * *** *
5159140 CCCCTAAGTAGTAGGGTAACA-AGCTGAA-TTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAAC
62 CCCCTAAGTAGTAGGGAAACAGATC-GAAGATGATGGGCTTTAAACCCCTAAGCAGTAGGGTAAC
* *
5159203 -AGGCT
126 AAGACC
* * * ** *
5159208 GAAGATTTAC-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGA-CGA-AGGGTCTTA
1 G-A-ATTTACAAG-CCTTAACCCCCTAAGCAGTAGGGTAACAGCT-GAAGATTTACA-GATCTT-
* * * * ** * *
5159270 AACCCCTAA-TCGGTAGGGTAACAGACCGAA-TTGCA-GATC-TT-ATCCCCTAAGCAGTAGGGA
60 AACCCCTAAGT-AGTAGGGAAACAGATCGAAGATG-ATGGGCTTTAAACCCCTAAGCAGTAGGGT
*
5159330 AAC-AGATC
123 AACAAGACC
* * *** * *
5159338 GAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCTG-A-ATTTACA-AGCCTTAAA
1 GAA-TTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAAC-AGCTGAAGATTTACAGA-TCTT-AA
* * * * ** * *
5159400 CCCCTAAGCAGTAGGGTAACAG-GCTGAAGAT-TTACAGATCTT-AACCCCTAAGCAGTAGGGAA
62 CCCCTAAGTAGTAGGGAAACAGATC-GAAGATGAT-GGGCT-TTAAACCCCTAAGCAGTAGGGTA
*
5159462 AC-AGATC
124 ACAAGACC
* * * * * * * *
5159469 GAA--GACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGATCG-A-A-TTGCAGATCTTAT
1 GAATTTAC-AA--GCCTTAACCCCCTAAGCAGTAGGGTAACAGCT-GAAGATTTACAGATCTTAA
*
5159529 CCCCTAAGTAGTAGGGAAACAGAT-GAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA
62 CCCCTAAGTAGTAGGGAAACAGATCGAAGATGATGGGCTTTAAACCCCTAAGCAGTAGGGTAACA
5159593 AG-CC
127 AGACC
*
5159597 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACA-GCTGAAGATTTACAGATCTTAACCC
* * *
5159662 TCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAACAGTAGGGTAACAAG
65 -CTAAGTAGTAGGGAAACAGATCGAAGATGATGGGCTTTAAACCCCTAAGCAGTAGGGTAACAAG
5159727 -CC
129 ACC
*
5159729 AAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACA-GCTGAAGATTTACAGATCTTAACCC
* * * * *
5159794 CTTAAGTAGTTGAGAAATA-ATCGAAGATGAT-GGCCTTAAACCCCTAAGTAGTAGGGTAACA
65 C-TAAGTAGTAGGGAAACAGATCGAAGATGATGGGCTTTAAACCCCTAAGCAGTAGGGTAACA
5159855 GGCTGGAAAT
Statistics
Matches: 629, Mismatches: 100, Indels: 96
0.76 0.12 0.12
Matches are distributed among these distances:
127 31 0.05
128 68 0.11
129 90 0.14
130 115 0.18
131 126 0.20
132 190 0.30
133 9 0.01
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (131 bp):
GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGCTGAAGATTTACAGATCTTAACCCC
TAAGTAGTAGGGAAACAGATCGAAGATGATGGGCTTTAAACCCCTAAGCAGTAGGGTAACAAGAC
C
Found at i:5160071 original size:68 final size:68
Alignment explanation
Indices: 5159884--5160071 Score: 281
Period size: 68 Copynumber: 2.8 Consensus size: 68
5159874 CTTTTTCTCT
* *
5159884 GAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA-AAGGATCTTTTCT
1 GAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGAA-GACCTCTTCT
*
5159948 TCCT
65 TCCG
* * * *
5159952 GAAATGGCGTTAGAGTGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCAA-ACCTCTTCT
1 GAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG-AAGACCTCTTCT
5160016 TCCG
65 TCCG
5160020 GAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
1 GAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
5160072 TGGAAGAAGA
Statistics
Matches: 107, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
68 105 0.98
70 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (68 bp):
GAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGAAGACCTCTTCTT
CCG
Found at i:5160289 original size:132 final size:132
Alignment explanation
Indices: 5160108--5161097 Score: 1743
Period size: 132 Copynumber: 7.5 Consensus size: 132
5160098 CTCCCTAAAG
* * *
5160108 TTATAGAGGAGCAGACCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCCAA
1 TTATAG-GGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAA
5160173 GATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTG
65 GATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTG
5160238 TGC
130 TGC
* *
5160241 TTATAGGGAACGGATCGAAGATAGCAGATCTGACATTCCTATGCTTACAGTGAAGCAGATCAAAG
1 TTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAG
*
5160306 ATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGT
66 ATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGT
5160371 GC
131 GC
* * *
5160373 TTATAGGGAACGGATCGAAGATAGCAGATTTG-CA-TCACTGTGCTTACA-TGAAGCAGATCGAA
1 TTATAGGGAACAGATCGAAGATAGCAGATCTGACATTC-CTGTGCTTACAGTGAAGCAGATCAAA
* *
5160435 GATTTTAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTG
65 GATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTG
5160500 TGC
130 TGC
*
5160503 TTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAG
1 TTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAG
* *
5160568 ATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGT
66 ATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGT
5160633 GC
131 GC
*
5160635 TTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAG
1 TTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAG
5160700 ATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGT
66 ATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGT
5160765 GC
131 GC
*
5160767 TTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAG
1 TTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAG
* *
5160832 ATTTCAGCATAGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGTATCCCTGT
66 ATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGT
5160897 GC
131 GC
*
5160899 TTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAG
1 TTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAG
*
5160964 ATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCTTGT
66 ATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGT
5161029 GC
131 GC
* *
5161031 TTATAGGGAACGGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAG
1 TTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAG
5161096 AT
66 AT
5161098 AGCGGATATC
Statistics
Matches: 827, Mismatches: 26, Indels: 9
0.96 0.03 0.01
Matches are distributed among these distances:
130 112 0.14
131 25 0.03
132 684 0.83
133 6 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (132 bp):
TTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAG
ATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGT
GC
Found at i:5161074 original size:44 final size:44
Alignment explanation
Indices: 5160108--5161100 Score: 745
Period size: 44 Copynumber: 22.6 Consensus size: 44
5160098 CTCCCTAAAG
* * * *
5160108 TTATAGAGGAGCAGACCGAAGATAGCAGATCTGACATTCCTGTGC
1 TTATAG-GGAACAGATCGAAGATAGCAGATCTGGCATCCCTGTGC
* * * **
5160153 TTACAGTGAAGCAGATCCAAGATTTCAG--CATGGCATCCCTGTGC
1 TTATAGGGAA-CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGC
* * * * *
5160197 TTATAGGGAACA-AGTTGAAAACATCAGATTTGGCATCCCTGTGC
1 TTATAGGGAACAGA-TCGAAGATAGCAGATCTGGCATCCCTGTGC
* * * *
5160241 TTATAGGGAACGGATCGAAGATAGCAGATCTGACATTCCTATGC
1 TTATAGGGAACAGATCGAAGATAGCAGATCTGGCATCCCTGTGC
* * * **
5160285 TTACAGTGAAGCAGATCAAAGATTTCAG--CATGGCATCCCTGTGC
1 TTATAGGGAA-CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGC
* * * *
5160329 TTATAGGGAACA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGC
1 TTATAGGGAACAGA-TCGAAGATAGCAGATCTGGCATCCCTGTGC
* * *
5160373 TTATAGGGAACGGATCGAAGATAGCAGAT-TTGCATCACTGTGC
1 TTATAGGGAACAGATCGAAGATAGCAGATCTGGCATCCCTGTGC
* * ***
5160416 TTACA-TGAAGCAGATCGAAGATTTTAG--CATGGCATCCCTGTGC
1 TTATAGGGAA-CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGC
* * * *
5160459 TTATAGGGAACA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGC
1 TTATAGGGAACAGA-TCGAAGATAGCAGATCTGGCATCCCTGTGC
* *
5160503 TTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
1 TTATAGGGAACAGATCGAAGATAGCAGATCTGGCATCCCTGTGC
* * **
5160547 TTACAGTGAAGCAGATCGAAGATTTCAG--CATGGCATCCCTGTGC
1 TTATAGGGAA-CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGC
* * *
5160591 TTATAGGGAACA-AGTTGAAAATAGCAGATTTGGCATCCCTGTGC
1 TTATAGGGAACAGA-TCGAAGATAGCAGATCTGGCATCCCTGTGC
* * *
5160635 TTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGC
1 TTATAGGGAACAGATCGAAGATAGCAGATCTGGCATCCCTGTGC
* * * **
5160679 TTACAGTGAAGCAGATCAAAGATTTCAG--CATGGCATCCCTGTGC
1 TTATAGGGAA-CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGC
* * * * *
5160723 TTATAGGGAACA-AGTTGAAAACATCAGATTTGGCATCCCTGTGC
1 TTATAGGGAACAGA-TCGAAGATAGCAGATCTGGCATCCCTGTGC
* * *
5160767 TTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGC
1 TTATAGGGAACAGATCGAAGATAGCAGATCTGGCATCCCTGTGC
* * * ** *
5160811 TTACAGTGAAGCAGATCAAAGATTTCAG--CATAGCATCCCTGTGC
1 TTATAGGGAA-CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGC
* * * * * *
5160855 TTATAGGGAACA-AGTTGAAAACATCAGATTTGGTATCCCTGTGC
1 TTATAGGGAACAGA-TCGAAGATAGCAGATCTGGCATCCCTGTGC
* * *
5160899 TTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGC
1 TTATAGGGAACAGATCGAAGATAGCAGATCTGGCATCCCTGTGC
* * * **
5160943 TTACAGTGAAGCAGATCAAAGATTTCAG--CATGGCATCCCTGTGC
1 TTATAGGGAA-CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGC
* * * * * *
5160987 TTATAGGGAACA-AGTTGAAAACATCAGATTTGGCATCCTTGTGC
1 TTATAGGGAACAGA-TCGAAGATAGCAGATCTGGCATCCCTGTGC
* * * *
5161031 TTATAGGGAACGGATCGAAGATAGCAAATCTGACATTCCTGTGC
1 TTATAGGGAACAGATCGAAGATAGCAGATCTGGCATCCCTGTGC
* * *
5161075 TTACAGTGAAGCAGATCAAAGATAGC
1 TTATAGGGAA-CAGATCGAAGATAGC
5161101 GGATATCGCC
Statistics
Matches: 731, Mismatches: 172, Indels: 90
0.74 0.17 0.09
Matches are distributed among these distances:
42 10 0.01
43 120 0.16
44 496 0.68
45 105 0.14
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
TTATAGGGAACAGATCGAAGATAGCAGATCTGGCATCCCTGTGC
Found at i:5161387 original size:4 final size:4
Alignment explanation
Indices: 5161378--5161404 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
5161368 CAAACACAAA
5161378 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
5161405 AACCTTGGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:5161485 original size:22 final size:22
Alignment explanation
Indices: 5161445--5161486 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
5161435 TGGCCACCCA
*
5161445 CCTTGGCCACCAACTCCACCAC
1 CCTTGGCCACCAACACCACCAC
5161467 CCTTGGCCACCTAA-ACCACC
1 CCTTGGCCACC-AACACCACC
5161487 CCAACCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.52, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCAACACCACCAC
Found at i:5161601 original size:20 final size:23
Alignment explanation
Indices: 5161559--5161605 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
5161549 GGTTTTTGGT
5161559 TTTTGGAGAAGGATTGTTCTTTG
1 TTTTGGAGAAGGATTGTTCTTTG
*
5161582 TTTTGGAGGAGG-TT-TT-TTTG
1 TTTTGGAGAAGGATTGTTCTTTG
5161602 TTTT
1 TTTT
5161606 TTTGGAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 2 0.09
22 2 0.09
23 11 0.48
ACGTcount: A:0.13, C:0.02, G:0.30, T:0.55
Consensus pattern (23 bp):
TTTTGGAGAAGGATTGTTCTTTG
Found at i:5161625 original size:25 final size:25
Alignment explanation
Indices: 5161591--5161639 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
5161581 GTTTTGGAGG
*
5161591 AGGTT-TTTTTGTTTTTTTGGAAAGA
1 AGGTTATTTTTG-TTTCTTGGAAAGA
5161616 AGGTTATTTTTGTTTCTTGGAAAG
1 AGGTTATTTTTGTTTCTTGGAAAG
5161640 GCTAGTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.20, C:0.02, G:0.24, T:0.53
Consensus pattern (25 bp):
AGGTTATTTTTGTTTCTTGGAAAGA
Found at i:5161951 original size:3 final size:3
Alignment explanation
Indices: 5161937--5162021 Score: 70
Period size: 3 Copynumber: 28.3 Consensus size: 3
5161927 GAGCTTTGTT
* *
5161937 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* *
5161981 TTC TCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 TTA TTA T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
5162022 ATATGCCCTC
Statistics
Matches: 66, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
2 6 0.09
3 53 0.80
4 7 0.11
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:5162279 original size:12 final size:12
Alignment explanation
Indices: 5162244--5162288 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
5162234 TATATTAGTG
* *
5162244 TATATTTTTATG
1 TATATATTTATA
*
5162256 TATATATATATA
1 TATATATTTATA
5162268 TATATATTTATA
1 TATATATTTATA
5162280 TATAGTATT
1 TATA-TATT
5162289 GTTTTTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
12 24 0.86
13 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (12 bp):
TATATATTTATA
Found at i:5162387 original size:2 final size:2
Alignment explanation
Indices: 5162382--5162415 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
5162372 GTATTTCTAT
*
5162382 TA TA TA CA 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
5162416 GTATTATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:5166316 original size:11 final size:13
Alignment explanation
Indices: 5166291--5166323 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
5166281 CCGTAACAAA
5166291 AGCAAAAATGAAT
1 AGCAAAAATGAAT
5166304 AG-AAAAATG-AT
1 AGCAAAAATGAAT
5166315 AGCAAAAAT
1 AGCAAAAAT
5166324 TAGATGCGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.21
12 13 0.68
13 2 0.11
ACGTcount: A:0.64, C:0.06, G:0.15, T:0.15
Consensus pattern (13 bp):
AGCAAAAATGAAT
Found at i:5175155 original size:59 final size:59
Alignment explanation
Indices: 5175092--5175210 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
5175082 TCTATAAATC
5175092 TTCAAACTCTTAAATAAGAGAGATAATACATATTTAAGTACAAACCCATGTCTTCATAA
1 TTCAAACTCTTAAATAAGAGAGATAATACATATTTAAGTACAAACCCATGTCTTCATAA
*
5175151 TTCAAACTCTTAAATAAGAGAGATAATACATGTTTAAGTACAAACCCATGTCTTCATAA
1 TTCAAACTCTTAAATAAGAGAGATAATACATATTTAAGTACAAACCCATGTCTTCATAA
5175210 T
1 T
5175211 GATAGCAACA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (59 bp):
TTCAAACTCTTAAATAAGAGAGATAATACATATTTAAGTACAAACCCATGTCTTCATAA
Found at i:5176189 original size:2 final size:2
Alignment explanation
Indices: 5176177--5176208 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
5176167 TGATGAATGA
5176177 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5176209 CGTTAGGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5180554 original size:24 final size:23
Alignment explanation
Indices: 5180523--5180568 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
5180513 AATTTTGGGC
*
5180523 CCAAAACCCCTAAACCCACTAAG
1 CCAAAACCCCAAAACCCACTAAG
*
5180546 CCAATAACCCCAAAACCTACTAA
1 CCAA-AACCCCAAAACCCACTAA
5180569 ACCCAGACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.46, C:0.41, G:0.02, T:0.11
Consensus pattern (23 bp):
CCAAAACCCCAAAACCCACTAAG
Found at i:5181685 original size:3 final size:3
Alignment explanation
Indices: 5181677--5181928 Score: 95
Period size: 3 Copynumber: 81.7 Consensus size: 3
5181667 AATGAATATA
* **
5181677 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TCT TGC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
5181725 TGT TAT CT-T TAT TAC TAT TAC TAT TGT TAT TAC TACT TCCAT TAT TTT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T T--AT TAT TAT
* * *
5181773 TAT T-T CTAAC TAT TAT TTT TAT GTAT ATAT TAT TAT T-T GTAT CAT
1 TAT TAT -T-AT TAT TAT TAT TAT -TAT -TAT TAT TAT TAT -TAT TAT
** * * *
5181818 CGT TAT TAT TAC TAT TAT TAAA TAT CT-T TAT TAT TAC TAT TACT T-T
1 TAT TAT TAT TAT TAT TAT T-AT TAT -TAT TAT TAT TAT TAT TA-T TAT
* * * * * *
5181864 TGT TCCT T-T TAT TAT TGTT TAT CAT CAT TA- TAT TAT TAT TAT TAC
1 TAT T-AT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
** *
5181909 TCC TAT TAT TAT TAT CAT TA
1 TAT TAT TAT TAT TAT TAT TA
5181929 CTTCTTTTTT
Statistics
Matches: 188, Mismatches: 41, Indels: 40
0.70 0.15 0.15
Matches are distributed among these distances:
2 10 0.05
3 156 0.83
4 19 0.10
5 2 0.01
6 1 0.01
ACGTcount: A:0.27, C:0.10, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:5184569 original size:12 final size:12
Alignment explanation
Indices: 5184552--5184585 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
5184542 CTGCCCACCC
5184552 ATATTAATTTTT
1 ATATTAATTTTT
*
5184564 ATATTATTTTTT
1 ATATTAATTTTT
5184576 ATA-TAATTTT
1 ATATTAATTTT
5184586 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:5184827 original size:22 final size:22
Alignment explanation
Indices: 5184802--5184844 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
5184792 TATCTAAACA
5184802 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
5184824 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
5184845 AATAGTGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:5184857 original size:11 final size:11
Alignment explanation
Indices: 5184809--5184850 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
5184799 ACAATAACAA
5184809 CAAAATAGTAG
1 CAAAATAGTAG
* *
5184820 CAACATAATAG
1 CAAAATAGTAG
*
5184831 TAAAATAGTAG
1 CAAAATAGTAG
5184842 CAAAATAGT
1 CAAAATAGT
5184851 GAGAAAACAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.21
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:5186190 original size:40 final size:40
Alignment explanation
Indices: 5186126--5186212 Score: 113
Period size: 40 Copynumber: 2.1 Consensus size: 40
5186116 GTCCAACCCA
* *
5186126 ACCACTATGTGGGGATAAAATCGACCCACCCATCGCC-ACAC
1 ACCA-TATATGGGGATAAAATCGACCCACCCAAC-CCTACAC
* *
5186167 ACCATATATGGGGATATAATCGACCCATCCAACCCTACAC
1 ACCATATATGGGGATAAAATCGACCCACCCAACCCTACAC
5186207 ACCATA
1 ACCATA
5186213 AAGTACCGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
39 2 0.05
40 35 0.85
41 4 0.10
ACGTcount: A:0.34, C:0.34, G:0.14, T:0.17
Consensus pattern (40 bp):
ACCATATATGGGGATAAAATCGACCCACCCAACCCTACAC
Found at i:5187223 original size:24 final size:24
Alignment explanation
Indices: 5187174--5187229 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
5187164 ACAACTAATC
* *
5187174 GAAAAAGAAAAAAATGAAGAAGAA
1 GAAAAAGAAAAAAAAGAAGAAAAA
*
5187198 GAAAAACGAAAAAAAAG-GGAAAAA
1 GAAAAA-GAAAAAAAAGAAGAAAAA
*
5187222 GAAGAAGA
1 GAAAAAGA
5187230 GAAGTTCAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 2 0.07
24 16 0.59
25 9 0.33
ACGTcount: A:0.73, C:0.02, G:0.23, T:0.02
Consensus pattern (24 bp):
GAAAAAGAAAAAAAAGAAGAAAAA
Found at i:5194525 original size:24 final size:25
Alignment explanation
Indices: 5194498--5194568 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 25
5194488 GATAGGGTAG
5194498 AATCTGTGAT-TGCATCTGTATCTA
1 AATCTGTGATATGCATCTGTATCTA
* * * *
5194522 AATCTGTG-TCTGTATTTGTATATA
1 AATCTGTGATATGCATCTGTATCTA
5194546 AATCTG-GATATGCATCTGTATCT
1 AATCTGTGATATGCATCTGTATCT
5194569 GATTATGAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
23 2 0.05
24 36 0.95
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (25 bp):
AATCTGTGATATGCATCTGTATCTA
Found at i:5194599 original size:24 final size:24
Alignment explanation
Indices: 5194572--5194627 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
5194562 TGTATCTGAT
*
5194572 TATGAAAATACATTTGATTCTGTA
1 TATGAAAATACATTTGAATCTGTA
* *
5194596 TATGAGAATATATTTGAATCTGTA
1 TATGAAAATACATTTGAATCTGTA
*
5194620 TCTGAAAA
1 TATGAAAA
5194628 CCTATCTACT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (24 bp):
TATGAAAATACATTTGAATCTGTA
Found at i:5197023 original size:6 final size:6
Alignment explanation
Indices: 5197012--5197062 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
5197002 TGGTAGGATT
* * *
5197012 TGTATC TGTATC TGTATC TGCATC TGCATC TGCATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
5197060 TGT
1 TGT
5197063 TACTATGATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.45
Consensus pattern (6 bp):
TGTATC
Found at i:5198170 original size:22 final size:23
Alignment explanation
Indices: 5198145--5198206 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
5198135 TAAAAATGAT
* *
5198145 AAAATTTTAATTTAATTCT-TTA
1 AAAATTATAATTTAATTATCTTA
* *
5198167 AAAATTATATTTTTATTATCTTA
1 AAAATTATAATTTAATTATCTTA
*
5198190 AAAATTACAATTTAATT
1 AAAATTATAATTTAATT
5198207 TTGACCCTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 15 0.47
23 17 0.53
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.52
Consensus pattern (23 bp):
AAAATTATAATTTAATTATCTTA
Found at i:5201622 original size:102 final size:102
Alignment explanation
Indices: 5201511--5201851 Score: 493
Period size: 102 Copynumber: 3.3 Consensus size: 102
5201501 TTTTGGCTTT
* * * * * * * * * * * *
5201511 TCTTCCTTTGGTGGTGCATAAACTGGTGGCTTAGGTGGTTTTGGCTCATATATTGGTGGGTTGTT
1 TCTTTCTTTGGAGGTGTATAAACCGGTGGCTTTGGTGGCTTAGGTTCATACATTGGAGGCTTTTT
* * * * *
5201576 GGGAGGTTGATACATTGGTGGCTTGGGTTCTGGTTTT
66 TGGAGGTTCATACATTGGTGGTTTGGGTTCAGGTTTC
5201613 TCTTTCTTTGGAGGTGTATAAACCGGTGGCTTTGGTGGCTTAGGTTCATACATTGGAGGCTTTTT
1 TCTTTCTTTGGAGGTGTATAAACCGGTGGCTTTGGTGGCTTAGGTTCATACATTGGAGGCTTTTT
5201678 TGGAGGTTCATACATTGGTGGTTTGGGTTCAGGTTTC
66 TGGAGGTTCATACATTGGTGGTTTGGGTTCAGGTTTC
* * *
5201715 TCTTTCTTTGGAGGTGTATAAACCGGTGGTTTTGGTGGCTTAGGTTCGTACATTGGAGGTTTTTT
1 TCTTTCTTTGGAGGTGTATAAACCGGTGGCTTTGGTGGCTTAGGTTCATACATTGGAGGCTTTTT
*
5201780 TGGAGGTTCATACACTGGTGGTTTGGGTTCAGGTTTC
66 TGGAGGTTCATACATTGGTGGTTTGGGTTCAGGTTTC
5201817 TCTTTCTTTGGAGGTGTATAAACCGGTGGCTTTGG
1 TCTTTCTTTGGAGGTGTATAAACCGGTGGCTTTGG
5201852 CTCGGGCTTC
Statistics
Matches: 217, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 217 1.00
ACGTcount: A:0.13, C:0.12, G:0.33, T:0.42
Consensus pattern (102 bp):
TCTTTCTTTGGAGGTGTATAAACCGGTGGCTTTGGTGGCTTAGGTTCATACATTGGAGGCTTTTT
TGGAGGTTCATACATTGGTGGTTTGGGTTCAGGTTTC
Found at i:5201743 original size:45 final size:45
Alignment explanation
Indices: 5201694--5202142 Score: 376
Period size: 45 Copynumber: 9.7 Consensus size: 45
5201684 TTCATACATT
*
5201694 GGTGGTTTGGGTTCAGGTTTCTCTTTCTTTGGAGGTGTATAAACC
1 GGTGGTTTGGGTTCAGGCTTCTCTTTCTTTGGAGGTGTATAAACC
* * *
5201739 GGTGGTTTTGGTGGCTT-AGG-TTCGTACATTGGAGGTTTTTTTGGAGGT-TCATACACT
1 GGTGG-TTT-G-GG-TTCAGGCTTC-T-C--------TTTCTTTGGAGGTGT-ATAAACC
*
5201796 GGTGGTTTGGGTTCAGGTTTCTCTTTCTTTGGAGGTGTATAAACC
1 GGTGGTTTGGGTTCAGGCTTCTCTTTCTTTGGAGGTGTATAAACC
* * * * *
5201841 GGTGGCTTT-GGCTCGGGCTTCTCCTTCTTTGGAGGT-TCATATACG
1 GGTGG-TTTGGGTTCAGGCTTCTCTTTCTTTGGAGGTGT-ATAAACC
* *
5201886 GGTGGTTTGGGTTCAGGTTTCTCTTTCTTTGGAGGTGTATAAATC
1 GGTGGTTTGGGTTCAGGCTTCTCTTTCTTTGGAGGTGTATAAACC
* * * * * *
5201931 GGTGGTTTTGGCTCAGGTTTCTCCTTCTTTGGAGGT-TCATATACT
1 GGTGGTTTGGGTTCAGGCTTCTCTTTCTTTGGAGGTGT-ATAAACC
* * * *
5201976 GGTGGTTTAGGTTTAGGCTCCTCTTTCTTTGGAGGTGTATAAACT
1 GGTGGTTTGGGTTCAGGCTTCTCTTTCTTTGGAGGTGTATAAACC
* * * *
5202021 GGTGGCTTT-GGCTCAGGCTTCTCCTTCTTTGGAGGT-TCATACACT
1 GGTGG-TTTGGGTTCAGGCTTCTCTTTCTTTGGAGGTGT-ATAAACC
* *
5202066 GGTGGTTTGGGTCCAGGCTTCTCTTTCTTTGGAGGTGCATAAACC
1 GGTGGTTTGGGTTCAGGCTTCTCTTTCTTTGGAGGTGTATAAACC
* *
5202111 GGTGGCTTAGGTTCAGGCTTCTCCTTT-TTTGG
1 GGTGGTTTGGGTTCAGGCTTCT-CTTTCTTTGG
5202143 TGGTTCATAC
Statistics
Matches: 329, Mismatches: 46, Indels: 58
0.76 0.11 0.13
Matches are distributed among these distances:
44 9 0.03
45 252 0.77
46 16 0.05
47 4 0.01
48 6 0.02
49 3 0.01
53 3 0.01
54 6 0.02
55 4 0.01
56 4 0.01
57 22 0.07
ACGTcount: A:0.12, C:0.16, G:0.30, T:0.41
Consensus pattern (45 bp):
GGTGGTTTGGGTTCAGGCTTCTCTTTCTTTGGAGGTGTATAAACC
Found at i:5201873 original size:102 final size:100
Alignment explanation
Indices: 5201475--5201941 Score: 431
Period size: 102 Copynumber: 4.7 Consensus size: 100
5201465 CTCATGTGCC
* * * * ** * * * *
5201475 GGAGGCTCATAAACTGATGGTTTAGGTTTTGGCTTT-TCTTCCTTTGGTGGTGCATAAACTGGTG
1 GGAGGTTCATACACTGGTGGTTTGGGTTCAGG-TTTCTCTTTCTTTGGAGGTGTATAAACCGGTG
* * * * * * * *
5201539 GCTTAGGTGGTTTTGGCTCATATATTGGTGGGTTGTTG
65 GCTTTGGTGG-CTT-GCTCCTACATTGGAGGTTTTTTT
* * * * *
5201577 GGAGGTTGATACATTGGTGGCTTGGGTTCTGGTTTTTCTTTCTTTGGAGGTGTATAAACCGGTGG
1 GGAGGTTCATACACTGGTGGTTTGGGTTCAGGTTTCTCTTTCTTTGGAGGTGTATAAACCGGTGG
* * *
5201642 CTTTGGTGGCTTAGGTTCATACATTGGAGGCTTTTTT
66 CTTTGGTGGCTT--GCTCCTACATTGGAGGTTTTTTT
*
5201679 GGAGGTTCATACATTGGTGGTTTGGGTTCAGGTTTCTCTTTCTTTGGAGGTGTATAAACCGGTGG
1 GGAGGTTCATACACTGGTGGTTTGGGTTCAGGTTTCTCTTTCTTTGGAGGTGTATAAACCGGTGG
* * *
5201744 TTTTGGTGGCTTAGGTTCGTACATTGGAGGTTTTTTT
66 CTTTGGTGGCTT--GCTCCTACATTGGAGGTTTTTTT
5201781 GGAGGTTCATACACTGGTGGTTTGGGTTCAGGTTTCTCTTTCTTTGGAGGTGTATAAACCGGTGG
1 GGAGGTTCATACACTGGTGGTTTGGGTTCAGGTTTCTCTTTCTTTGGAGGTGTATAAACCGGTGG
*
5201846 CTTTGGCTCGGGCTT-CT-C--C---------TTCTTT
66 CTTTGG-T--GGCTTGCTCCTACATTGGAGGTTTTTTT
* * *
5201871 GGAGGTTCATATACGGGTGGTTTGGGTTCAGGTTTCTCTTTCTTTGGAGGTGTATAAATCGGTGG
1 GGAGGTTCATACACTGGTGGTTTGGGTTCAGGTTTCTCTTTCTTTGGAGGTGTATAAACCGGTGG
*
5201936 TTTTGG
66 CTTTGG
5201942 CTCAGGTTTC
Statistics
Matches: 324, Mismatches: 36, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
90 72 0.22
99 1 0.00
101 5 0.02
102 240 0.74
103 1 0.00
105 5 0.02
ACGTcount: A:0.13, C:0.13, G:0.32, T:0.42
Consensus pattern (100 bp):
GGAGGTTCATACACTGGTGGTTTGGGTTCAGGTTTCTCTTTCTTTGGAGGTGTATAAACCGGTGG
CTTTGGTGGCTTGCTCCTACATTGGAGGTTTTTTT
Found at i:5201890 original size:90 final size:90
Alignment explanation
Indices: 5201778--5202170 Score: 597
Period size: 90 Copynumber: 4.4 Consensus size: 90
5201768 TGGAGGTTTT
*
5201778 TTTGGAGGTTCATACACTGGTGGTTTGGGTTCAGGTTTCTCTTTCTTTGGAGGTGTATAAACCGG
1 TTTGGAGGTTCATACACTGGTGGTTTGGGTTCAGGCTTCTCTTTCTTTGGAGGTGTATAAACCGG
*
5201843 TGGCTTTGGCTCGGGCTTCTCCTTC
66 TGGCTTTGGCTCAGGCTTCTCCTTC
* * * *
5201868 TTTGGAGGTTCATATACGGGTGGTTTGGGTTCAGGTTTCTCTTTCTTTGGAGGTGTATAAATCGG
1 TTTGGAGGTTCATACACTGGTGGTTTGGGTTCAGGCTTCTCTTTCTTTGGAGGTGTATAAACCGG
* *
5201933 TGGTTTTGGCTCAGGTTTCTCCTTC
66 TGGCTTTGGCTCAGGCTTCTCCTTC
* * * * *
5201958 TTTGGAGGTTCATATACTGGTGGTTTAGGTTTAGGCTCCTCTTTCTTTGGAGGTGTATAAACTGG
1 TTTGGAGGTTCATACACTGGTGGTTTGGGTTCAGGCTTCTCTTTCTTTGGAGGTGTATAAACCGG
5202023 TGGCTTTGGCTCAGGCTTCTCCTTC
66 TGGCTTTGGCTCAGGCTTCTCCTTC
* *
5202048 TTTGGAGGTTCATACACTGGTGGTTTGGGTCCAGGCTTCTCTTTCTTTGGAGGTGCATAAACCGG
1 TTTGGAGGTTCATACACTGGTGGTTTGGGTTCAGGCTTCTCTTTCTTTGGAGGTGTATAAACCGG
* * *
5202113 TGGCTTAGGTTCAGGCTTCTCCTTT
66 TGGCTTTGGCTCAGGCTTCTCCTTC
* * *
5202138 TTTGGTGGTTCATACACTGGTGGCTTAGGTTCA
1 TTTGGAGGTTCATACACTGGTGGTTTGGGTTCA
5202171 TATGGTGGTG
Statistics
Matches: 274, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 274 1.00
ACGTcount: A:0.13, C:0.18, G:0.29, T:0.40
Consensus pattern (90 bp):
TTTGGAGGTTCATACACTGGTGGTTTGGGTTCAGGCTTCTCTTTCTTTGGAGGTGTATAAACCGG
TGGCTTTGGCTCAGGCTTCTCCTTC
Found at i:5202090 original size:180 final size:180
Alignment explanation
Indices: 5201676--5202170 Score: 666
Period size: 180 Copynumber: 2.7 Consensus size: 180
5201666 TGGAGGCTTT
*
5201676 TTTGGAGGTTCATACATTGGTGGTTTGGGTTCAGGTTTCTCTTTCTTTGGAGGTGTATAAACCGG
1 TTTGGAGGTTCATACACTGGTGGTTTGGGTTCAGGTTTCTCTTTCTTTGGAGGTGTATAAACCGG
* ** *
5201741 TGGTTTTGGTGGCTTAGGTTCGTACATTGGAGGTTTTTTTGGAGGTTCATACACTGGTGGTTTGG
66 TGG-TTT--TGGCTCAGGTT--T-C--T----CCTTTTTTGGAGGTTCATACACTGGTGGTTTAG
* * *
5201806 GTTCAGGTTTCTCTTTCTTTGGAGGTGTATAAACCGGTGGCTTTGGCTCGGGCTTCTCCTTC
119 GTTCAGGCTCCTCTTTCTTTGGAGGTGTATAAACCGGTGGCTTTGGCTCAGGCTTCTCCTTC
* * *
5201868 TTTGGAGGTTCATATACGGGTGGTTTGGGTTCAGGTTTCTCTTTCTTTGGAGGTGTATAAATCGG
1 TTTGGAGGTTCATACACTGGTGGTTTGGGTTCAGGTTTCTCTTTCTTTGGAGGTGTATAAACCGG
* * *
5201933 TGGTTTTGGCTCAGGTTTCTCCTTCTTTGGAGGTTCATATACTGGTGGTTTAGGTTTAGGCTCCT
66 TGGTTTTGGCTCAGGTTTCTCCTTTTTTGGAGGTTCATACACTGGTGGTTTAGGTTCAGGCTCCT
*
5201998 CTTTCTTTGGAGGTGTATAAACTGGTGGCTTTGGCTCAGGCTTCTCCTTC
131 CTTTCTTTGGAGGTGTATAAACCGGTGGCTTTGGCTCAGGCTTCTCCTTC
* * *
5202048 TTTGGAGGTTCATACACTGGTGGTTTGGGTCCAGGCTTCTCTTTCTTTGGAGGTGCATAAACCGG
1 TTTGGAGGTTCATACACTGGTGGTTTGGGTTCAGGTTTCTCTTTCTTTGGAGGTGTATAAACCGG
* * * * * *
5202113 TGGCTTAGGTTCAGGCTTCTCCTTTTTTGGTGGTTCATACACTGGTGGCTTAGGTTCA
66 TGGTTTTGGCTCAGGTTTCTCCTTTTTTGGAGGTTCATACACTGGTGGTTTAGGTTCA
5202171 TATGGTGGTG
Statistics
Matches: 273, Mismatches: 30, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
180 193 0.71
184 1 0.00
186 1 0.00
187 1 0.00
189 10 0.04
191 3 0.01
192 64 0.23
ACGTcount: A:0.13, C:0.16, G:0.30, T:0.41
Consensus pattern (180 bp):
TTTGGAGGTTCATACACTGGTGGTTTGGGTTCAGGTTTCTCTTTCTTTGGAGGTGTATAAACCGG
TGGTTTTGGCTCAGGTTTCTCCTTTTTTGGAGGTTCATACACTGGTGGTTTAGGTTCAGGCTCCT
CTTTCTTTGGAGGTGTATAAACCGGTGGCTTTGGCTCAGGCTTCTCCTTC
Done.