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 175 of 438
Found at i:53905723 original size:28 final size:29
Alignment explanation
Indices: 53905688--53905759 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
53905678 AAAATTGTAC
*
53905688 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-CTGAATATATAT
53905716 AGCACTAAGTGTGCGAGCTGAATATATAT
1 AGCACTAAGTGTGCGAGCTGAATATATAT
53905745 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
53905760 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAATATATAT
Found at i:53908516 original size:14 final size:15
Alignment explanation
Indices: 53908497--53908526 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
53908487 ATATTTGACT
53908497 TGTTCTTAATT-TTG
1 TGTTCTTAATTCTTG
53908511 TGTTCTTAATTCTTG
1 TGTTCTTAATTCTTG
53908526 T
1 T
53908527 TTTAATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (15 bp):
TGTTCTTAATTCTTG
Found at i:53910486 original size:44 final size:45
Alignment explanation
Indices: 53910423--53910594 Score: 199
Period size: 44 Copynumber: 3.8 Consensus size: 45
53910413 TGTAACCCGC
*
53910423 CCATAAGTGAACTC-GACTCAACTCAACGAGCTCGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
*
53910467 CCATAAGTGAACTC-GACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** *
53910512 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
*
53910559 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
53910595 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 35 0.32
45 5 0.05
46 34 0.31
47 25 0.23
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:53910614 original size:46 final size:45
Alignment explanation
Indices: 53910428--53910614 Score: 122
Period size: 44 Copynumber: 4.1 Consensus size: 45
53910418 CCCGCCCATA
* * *
53910428 AGTGAACTCGACTCAACTCAACGAGCTCGG-CGTTC--GCATCCAT
1 AGTGAACTCGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T
53910471 AAGTGAACTCGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 -AGTGAACTCGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CT
* * * * * *
53910520 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTC-GACTCAACTCAACGAGCTCGG--ATGCTCAACCATCCT
*
53910564 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTC-GACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
53910610 AGTGA
1 AGTGA
53910615 CATGTCACTT
Statistics
Matches: 114, Mismatches: 12, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
44 40 0.35
45 1 0.01
46 39 0.34
47 23 0.20
49 9 0.08
50 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
Found at i:53916097 original size:93 final size:93
Alignment explanation
Indices: 53915970--53916139 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
53915960 CCCATAAGTG
* * *
53915970 AACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
53916035 GAGCTCGGATGCCTAGTTACATCTCTCA
66 GAGCTCGGATGCCTAGTTACATCTCTCA
*
53916063 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
53916128 GAGTTCGGATGC
66 GAGCTCGGATGC
53916140 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCA
Found at i:53916136 original size:46 final size:46
Alignment explanation
Indices: 53915961--53916136 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
53915951 TGTAACCCGC
* * *
53915961 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
53916007 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
53916057 CTC-TCA---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
53916100 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
53916137 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 8, Indels: 22
0.79 0.06 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.06
44 1 0.01
46 63 0.57
47 27 0.24
49 1 0.01
50 6 0.05
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:53917587 original size:19 final size:18
Alignment explanation
Indices: 53917547--53917586 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
53917537 GCCATTCTAC
53917547 TTTATTTTCAATTTTCAAT
1 TTTATTTTC-ATTTTCAAT
53917566 TTTATTTTC-TTTTCTAAT
1 TTTATTTTCATTTTC-AAT
53917584 TTT
1 TTT
53917587 TCTTTTATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 6 0.30
19 9 0.45
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATTTTCATTTTCAAT
Found at i:53922611 original size:40 final size:40
Alignment explanation
Indices: 53922552--53922693 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
53922542 AAATTGAATG
* * *
53922552 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
53922592 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
53922632 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
53922672 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
53922694 GCATTTGTGC
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 3 0.04
40 82 0.96
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:53922717 original size:40 final size:39
Alignment explanation
Indices: 53922590--53922719 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
53922580 ATGCTGGAAA
* * *
53922590 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGC
* *
53922631 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C
*
53922669 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GC
53922710 TTATATCCGG
1 TTATATCCGG
53922720 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGC
Found at i:53927932 original size:39 final size:39
Alignment explanation
Indices: 53927878--53928007 Score: 197
Period size: 39 Copynumber: 3.3 Consensus size: 39
53927868 TATGAGACTA
*
53927878 GAAATATATCCGGACATGAGGTCTGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
*
53927917 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTA
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
* * **
53927956 GAAATATATTCGGACTTGAGGTCCGCAGGCTACGTGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
*
53927995 GAAAAATATCCGG
1 GAAATATATCCGG
53928008 GTTAAAGACC
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (39 bp):
GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
Found at i:53928021 original size:78 final size:77
Alignment explanation
Indices: 53927875--53928043 Score: 196
Period size: 78 Copynumber: 2.2 Consensus size: 77
53927865 ATGTATGAGA
* * * * * **
53927875 CTAGAAATATATCCGGACATGAGGTCTGCAGGCTATATGCTGGAAATATATCCGGACATGAGGTC
1 CTAGAAATATATTCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACC
53927940 CGCAGGCTATATG
66 CGCAGGCT-TATG
* * **
53927953 CTAGAAATATATTCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATCCGG-GTTAAAGAC
1 CTAGAAATATATTCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACAT-AAGAC
53928017 CCGCAGGCTTATG
65 CCGCAGGCTTATG
* *
53928030 CTAGTAATGTATTC
1 CTAGAAATATATTC
53928044 CGAGCTCTAA
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
77 17 0.22
78 60 0.78
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (77 bp):
CTAGAAATATATTCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACC
CGCAGGCTTATG
Found at i:53930622 original size:40 final size:39
Alignment explanation
Indices: 53930577--53930784 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
53930567 CGGAATACAA
*
53930577 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
53930617 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
53930657 CCAGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
53930697 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
53930737 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
53930777 CCGGATAT
1 CCGGATAT
53930785 CATTCAATTG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.03
40 132 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:53930725 original size:80 final size:80
Alignment explanation
Indices: 53930580--53930783 Score: 223
Period size: 80 Copynumber: 2.5 Consensus size: 80
53930570 AATACAACCG
* * *
53930580 GATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATGCCT
1 GATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGCCT
*
53930645 TCGGGTATTAGCCCA
66 TCGGGTATTAACCCA
* * **
53930660 GATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCAC-AATGGC
1 GATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAAAT-GC
* *
53930723 CTTCGGGTCTTAACCCG
64 CTTCGGGTATTAACCCA
** * ** * *
53930740 GATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 GATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
53930784 TCATTCAATT
Statistics
Matches: 103, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
79 3 0.03
80 98 0.95
81 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (80 bp):
GATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGCCT
TCGGGTATTAACCCA
Found at i:53937831 original size:23 final size:24
Alignment explanation
Indices: 53937775--53937836 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
53937765 CTTATTATGT
53937775 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
53937799 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
53937823 T-GCACACATAGTGC
1 TCGCACACATAGTGC
53937837 ATTTGAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 13 0.34
24 25 0.66
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:53955573 original size:28 final size:28
Alignment explanation
Indices: 53955527--53955595 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
53955517 TTTAAAACCC
*
53955527 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
53955554 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
53955582 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
53955596 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:53957478 original size:48 final size:46
Alignment explanation
Indices: 53957336--53957506 Score: 164
Period size: 48 Copynumber: 3.6 Consensus size: 46
53957326 CAATGCTGAT
* *
53957336 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAC-TGTGGCCAA
1 GCCATGTCCCAGACATGGTCTTACACTGG-TCTCATACAT-TGTCGAA
* * * **
53957383 TGCCATGGCCCAGACATGGTCTTACACTAGTGCACATATCAACGTCGAA
1 -GCCATGTCCCAGACATGGTCTTACACTGGT-CTCATA-CATTGTCGAA
* *
53957432 GCCATGTCCCAGGCATGGTCTTACACTGGATCTCATACCATTGTCGAC
1 GCCATGTCCCAGACATGGTCTTACACTGG-TCTCATA-CATTGTCGAA
* * *
53957480 TCCATGTTCCAGGCATGGTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
53957507 AGCACACATA
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
47 1 0.01
48 95 0.93
49 6 0.06
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.26
Consensus pattern (46 bp):
GCCATGTCCCAGACATGGTCTTACACTGGTCTCATACATTGTCGAA
Found at i:53957500 original size:96 final size:96
Alignment explanation
Indices: 53957336--53957519 Score: 246
Period size: 96 Copynumber: 1.9 Consensus size: 96
53957326 CAATGCTGAT
*
53957336 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACTGTGGCCAATGCCATGGCCCAGACATG
1 GCCATGTCCCAGACATGGTCTTACACTGGATCTCATACTGTGGCCAATGCCATGGCCCAGACATG
**
53957401 GTCTTACACTAGTGCACATATCAACGTCGAA
66 GTCTTACACTAGCACACATATCAACGTCGAA
* * * * ** *
53957432 GCCATGTCCCAGGCATGGTCTTACACTGGATCTCATACCAT-TGTCGACT-CCATGTTCCAGGCA
1 GCCATGTCCCAGACATGGTCTTACACTGGATCTCATA-C-TGTGGCCAATGCCATGGCCCAGACA
53957495 TGGTCTTACACTAGCACACATATCA
64 TGGTCTTACACTAGCACACATATCA
53957520 CTCAAATGTC
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
96 69 0.91
97 6 0.08
98 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (96 bp):
GCCATGTCCCAGACATGGTCTTACACTGGATCTCATACTGTGGCCAATGCCATGGCCCAGACATG
GTCTTACACTAGCACACATATCAACGTCGAA
Found at i:53958584 original size:28 final size:28
Alignment explanation
Indices: 53958532--53958586 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
53958522 ATTTATATAA
**
53958532 ATGGAACTTAGTGTGCAAAGTATCGAGG
1 ATGGAACTTAGTGTGCAAAACATCGAGG
*
53958560 ATGGCACTTAGTGTGCAAAACATCGAG
1 ATGGAACTTAGTGTGCAAAACATCGAG
53958587 AATAACACTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.24
Consensus pattern (28 bp):
ATGGAACTTAGTGTGCAAAACATCGAGG
Found at i:53958595 original size:28 final size:28
Alignment explanation
Indices: 53958537--53958595 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
53958527 TATAAATGGA
** * **
53958537 ACTTAGTGTGCAAAGTATCGAGGATGGC
1 ACTTAGTGTGCAAAACATCGAGAATAAC
53958565 ACTTAGTGTGCAAAACATCGAGAATAAC
1 ACTTAGTGTGCAAAACATCGAGAATAAC
53958593 ACT
1 ACT
53958596 CAGCGTGCGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (28 bp):
ACTTAGTGTGCAAAACATCGAGAATAAC
Found at i:53961302 original size:50 final size:50
Alignment explanation
Indices: 53961238--53961373 Score: 193
Period size: 50 Copynumber: 2.7 Consensus size: 50
53961228 CAATACATGT
* * *
53961238 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGAAAGAGGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAAAGAAGA
* * * *
53961288 GAGCCAGTGTAAGACCATGTCTGGGATATGGCATCAGCCTCGATATAAGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAAGAAGA
53961338 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
53961374 ACTCGATATG
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
49 1 0.01
50 75 0.99
ACGTcount: A:0.29, C:0.20, G:0.32, T:0.19
Consensus pattern (50 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAAGAAGA
Found at i:53961413 original size:47 final size:49
Alignment explanation
Indices: 53961243--53961413 Score: 179
Period size: 50 Copynumber: 3.5 Consensus size: 49
53961233 CATGTGAGCT
* * * * *
53961243 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGAAAGAGGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG-ACTCGATATA-GAGAGAC
* * *
53961293 AGTGTAAGACCATGTCTGGGATATGGCATCAGCCTCGATATAAGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGACTCGATAT-AGAGAGAC
* *
53961343 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGATAT-GTGATTAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGACTCGATATAGAGA-GAC
*
53961391 A-TGTAAGACCATGTTTGGGACAT
1 AGTGTAAGACCATGTCTGGGACAT
53961414 TAGCATTGTA
Statistics
Matches: 106, Mismatches: 12, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
47 24 0.23
48 2 0.02
49 10 0.09
50 69 0.65
51 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGACTCGATATAGAGAGAC
Found at i:53961472 original size:43 final size:43
Alignment explanation
Indices: 53961345--53961488 Score: 139
Period size: 43 Copynumber: 3.3 Consensus size: 43
53961335 AGAGAGCCAG
* *
53961345 TGTAAGACCATGTCTGGGACATGGCATCGACTCGATATGTGATTACA
1 TGTAAGACCATGTGTGGGACAT-G-AGC-A-TCGATATGTGATTACA
* * * * *
53961392 TGTAAGACCATGTTTGGGACATTAGCATTG-TATTGTGATTTCG
1 TGTAAGACCATGTGTGGGACATGAGCATCGATA-TGTGATTACA
* *
53961435 TGTAAGACCCTGTGTGGGACAGTGA-CATCGATATGTGATAACA
1 TGTAAGACCATGTGTGGGACA-TGAGCATCGATATGTGATTACA
53961478 TGTAAGACCAT
1 TGTAAGACCAT
53961489 ATCTAGGATA
Statistics
Matches: 80, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
42 2 0.03
43 50 0.62
44 5 0.06
45 2 0.03
47 21 0.26
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTGTGGGACATGAGCATCGATATGTGATTACA
Found at i:53966310 original size:40 final size:39
Alignment explanation
Indices: 53966246--53966331 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 39
53966236 TAATGACTTA
**
53966246 TCGGCTAAAATGGCACTTAGTGTGCGGTTTGAAATAGCT
1 TCGGCTAAAATGGCACTTAGTGTGCAATTTGAAATAGCT
*
53966285 TCGGCTAAAAGTGGCACTT-GATGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGGCACTTAG-TGTGCAATTTGAAATAGCT
*
53966325 TTGGCTA
1 TCGGCTA
53966332 TATTTATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
39 11 0.27
40 30 0.73
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (39 bp):
TCGGCTAAAATGGCACTTAGTGTGCAATTTGAAATAGCT
Found at i:53969832 original size:25 final size:25
Alignment explanation
Indices: 53969663--53969824 Score: 216
Period size: 25 Copynumber: 6.5 Consensus size: 25
53969653 TAAGCTTGTT
*
53969663 AATTTGTTCTTAATAATTCCGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
*
53969688 AATTTGCTCTTAAAAATTCCGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
* *
53969713 AAATTGCTCTTAATAATTCCGATTA
1 AATTTGCTCTTAATAATTCCGGTTA
*
53969738 AATTTGTTCTTAATAATTCCGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
** *
53969763 AATTTTTTCTTAATAATTCAGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
* * *
53969788 AATTTACTCTTAACATTTCCGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
*
53969813 AATTTGCCCTTA
1 AATTTGCTCTTA
53969825 TTATTTCCAA
Statistics
Matches: 120, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 120 1.00
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (25 bp):
AATTTGCTCTTAATAATTCCGGTTA
Found at i:53970720 original size:45 final size:45
Alignment explanation
Indices: 53970653--53970917 Score: 367
Period size: 45 Copynumber: 6.0 Consensus size: 45
53970643 TATCGTACAG
53970653 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* **
53970698 TACTATTCGGGCCTTTGTGCCTAGCAGGCTATAATGGTGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
53970743 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
53970788 TACTATTCGGGTCTTTGAGCCTAGCAGGCTATAATGTCAGTGGGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
53970833 TACGATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCTGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
53970878 TGA-TATT-GGG-CTTCGAGCCTAGCAGGCGA-AATGTCGGTGA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
53970918 ATGAATTCGG
Statistics
Matches: 197, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
42 9 0.05
43 18 0.09
44 3 0.02
45 166 0.84
46 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:53977343 original size:25 final size:25
Alignment explanation
Indices: 53977310--53977490 Score: 263
Period size: 25 Copynumber: 7.2 Consensus size: 25
53977300 TAAGCTTGTT
53977310 AATTTGTTCTTAATAATTCCGGTTA
1 AATTTGTTCTTAATAATTCCGGTTA
* *
53977335 TATTTGTTCTTAATAATTGCGGTTA
1 AATTTGTTCTTAATAATTCCGGTTA
* *
53977360 AATATGTTCTTAATAATCCCGGTTA
1 AATTTGTTCTTAATAATTCCGGTTA
* *
53977385 AATTTGCTCTTAATAATTTCGGTTA
1 AATTTGTTCTTAATAATTCCGGTTA
* *
53977410 AATTTGTTCTTAATAATTTCGATTA
1 AATTTGTTCTTAATAATTCCGGTTA
53977435 AATTTGTTCTTAATAATTCCGGTTA
1 AATTTGTTCTTAATAATTCCGGTTA
* * *
53977460 AATTTGCTCTTAATATTTCTGGTTA
1 AATTTGTTCTTAATAATTCCGGTTA
53977485 AATTTG
1 AATTTG
53977491 CCCTTATTAT
Statistics
Matches: 139, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 139 1.00
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (25 bp):
AATTTGTTCTTAATAATTCCGGTTA
Found at i:53978389 original size:45 final size:45
Alignment explanation
Indices: 53978325--53978781 Score: 534
Period size: 45 Copynumber: 10.0 Consensus size: 45
53978315 TATTGTACAG
* *
53978325 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGATA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
53978370 TACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
53978415 TACTATTTGGGCTTTTGAGCCTAGCAGGCTATAATGCAGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
53978460 TACTATTCGGGCAGATACTATTCGGGCCTTTGAGCCTAGCAGTCTATAATGCCGGTGAGA
1 TACTATTCGGGC-----CT-TT---G------AGCCTAGCAGGCTATAATGCCGGTGAGA
53978520 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
53978565 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGATGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
53978610 TGA-TA-TCGGG-CTTTGAGCCTAGCAGGCGA-AATGCCGGTGAGA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
53978652 TACTATTCGGGCCTTTGAGCCTAGCAAGCTATAATGTCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
53978697 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGATGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
53978742 TGA-TA-TCGGG-CTTCGAGCCTAGTAGGCGA-AATGCCGGTGA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
53978782 ATGAATTAGG
Statistics
Matches: 361, Mismatches: 30, Indels: 45
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.00
42 24 0.07
43 39 0.11
44 27 0.07
45 221 0.61
46 2 0.01
50 1 0.00
51 3 0.01
54 3 0.01
55 2 0.01
60 38 0.11
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:53978477 original size:15 final size:15
Alignment explanation
Indices: 53978457--53978486 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
53978447 AATGCAGGTG
53978457 AGATACTATTCGGGC
1 AGATACTATTCGGGC
53978472 AGATACTATTCGGGC
1 AGATACTATTCGGGC
53978487 CTTTGAGCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (15 bp):
AGATACTATTCGGGC
Found at i:53978492 original size:60 final size:60
Alignment explanation
Indices: 53978412--53978531 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 60
53978402 AATGCCGGTG
* *
53978412 AGATACTATTTGGGCTTTTGAGCCTAGCAGGCTATAATGCAGGTGAGATACTATTCGGGC
1 AGATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCAGGTGAGATACTATTCGGGC
* *
53978472 AGATACTATTCGGGCCTTTGAGCCTAGCAGTCTATAATGCCGGTGAGATACTATTCGGGC
1 AGATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCAGGTGAGATACTATTCGGGC
53978532 CTTTGAGCCT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (60 bp):
AGATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCAGGTGAGATACTATTCGGGC
Found at i:53978551 original size:105 final size:105
Alignment explanation
Indices: 53978369--53978576 Score: 371
Period size: 105 Copynumber: 2.0 Consensus size: 105
53978359 TGCTGGTGAT
* *
53978369 ATACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTTGGGCTTTTGAG
1 ATACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGCCTTTGAG
53978434 CCTAGCAGGCTATAATGCAGGTGAGATACTATTCGGGCAG
66 CCTAGCAGGCTATAATGCAGGTGAGATACTATTCGGGCAG
* *
53978474 ATACTATTCGGGCCTTTGAGCCTAGCAGTCTATAATGCCGGTGAGATACTATTCGGGCCTTTGAG
1 ATACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGCCTTTGAG
*
53978539 CCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGC
66 CCTAGCAGGCTATAATGCAGGTGAGATACTATTCGGGC
53978577 CTTCGAGCCT
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 98 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (105 bp):
ATACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGCCTTTGAG
CCTAGCAGGCTATAATGCAGGTGAGATACTATTCGGGCAG
Found at i:53978596 original size:150 final size:150
Alignment explanation
Indices: 53978325--53978601 Score: 491
Period size: 150 Copynumber: 1.8 Consensus size: 150
53978315 TATTGTACAG
* *
53978325 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGATATACTATTCGAGCCTTTGAGC
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGAGCCTTTGAGC
* * *
53978390 CTAGCAGGCTATAATGCCGGTGAGATACTATTTGGGCTTTTGAGCCTAGCAGGCTATAATGCAGG
66 CTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCAGG
53978455 TGAGATACTATTCGGGCAGA
131 TGAGATACTATTCGGGCAGA
* *
53978475 TACTATTCGGGCCTTTGAGCCTAGCAGTCTATAATGCCGGTGAGATACTATTCGGGCCTTTGAGC
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGAGCCTTTGAGC
53978540 CTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGC
66 CTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGC
53978602 CGATGAAATG
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
150 120 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (150 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGAGCCTTTGAGC
CTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCAGG
TGAGATACTATTCGGGCAGA
Found at i:53978744 original size:132 final size:132
Alignment explanation
Indices: 53978481--53978781 Score: 530
Period size: 132 Copynumber: 2.3 Consensus size: 132
53978471 CAGATACTAT
* *
53978481 TCGGGCCTTTGAGCCTAGCAGTCTATAATGCCGGTGAGATACTATTCGGGCCTTTGAGCCTAGCA
1 TCGGG-CTTTGAGCCTAGCAGGCGA-AATGCCGGTGAGATACTATTCGGGCCTTTGAGCCTAGCA
*
53978546 GGCTATAATGCCGGTGAGATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGATGAAAT
64 AGCTATAATGCCGGTGAGATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGATGAAAT
53978611 GATA
129 GATA
53978615 TCGGGCTTTGAGCCTAGCAGGCGAAATGCCGGTGAGATACTATTCGGGCCTTTGAGCCTAGCAAG
1 TCGGGCTTTGAGCCTAGCAGGCGAAATGCCGGTGAGATACTATTCGGGCCTTTGAGCCTAGCAAG
*
53978680 CTATAATGTCGGTGAGATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGATGAAATGA
66 CTATAATGCCGGTGAGATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGATGAAATGA
53978745 TA
131 TA
* *
53978747 TCGGGCTTCGAGCCTAGTAGGCGAAATGCCGGTGA
1 TCGGGCTTTGAGCCTAGCAGGCGAAATGCCGGTGA
53978782 ATGAATTAGG
Statistics
Matches: 161, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
132 139 0.86
133 17 0.11
134 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (132 bp):
TCGGGCTTTGAGCCTAGCAGGCGAAATGCCGGTGAGATACTATTCGGGCCTTTGAGCCTAGCAAG
CTATAATGCCGGTGAGATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGATGAAATGA
TA
Found at i:53981231 original size:47 final size:47
Alignment explanation
Indices: 53981076--53981245 Score: 152
Period size: 47 Copynumber: 3.6 Consensus size: 47
53981066 GATGTAAGCT
* * *
53981076 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTATAA--GATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACT-TAATGGATGAGTC
* * * * **
53981120 AGTGTAAGACCACGTTTGGGATATGGCATTAGCACAGATATGTGA-GAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCA-TCG-ACTTA-ATG-GATGAGTC
*
53981170 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTAATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTAATGGATGAGTC
* *
53981217 AGTGTAAGACCATGTCTGGCACACGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
53981246 TGGCATTATA
Statistics
Matches: 99, Mismatches: 18, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
44 9 0.09
45 10 0.10
46 5 0.05
47 37 0.37
48 5 0.05
49 2 0.02
50 29 0.29
51 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTAATGGATGAGTC
Found at i:53988029 original size:24 final size:24
Alignment explanation
Indices: 53987999--53988289 Score: 465
Period size: 24 Copynumber: 12.1 Consensus size: 24
53987989 GAATGTGACT
* *
53987999 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
53988023 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53988047 ATAGTAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
53988071 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53988095 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
* * *
53988119 ATAGTGAATCGAACACCTAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
53988143 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53988167 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53988191 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53988215 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53988239 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53988263 ATAGTAAACCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
53988287 ATA
1 ATA
53988290 TGGTCTTTGC
Statistics
Matches: 254, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 254 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:53995281 original size:24 final size:24
Alignment explanation
Indices: 53995251--53995539 Score: 474
Period size: 24 Copynumber: 12.1 Consensus size: 24
53995241 GAATGTGACT
* *
53995251 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
53995275 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
53995299 ATAGTAAATCGCACACATAGTG-C
1 ATAGTAAATCGCACACATAGTGCC
53995322 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53995346 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53995370 ATAGTGAATCGCACAC-TAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
53995393 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53995417 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53995441 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53995465 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53995489 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53995513 ATAGTAAACCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
53995537 ATA
1 ATA
53995540 TGGTCTTTGC
Statistics
Matches: 256, Mismatches: 7, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
23 45 0.18
24 211 0.82
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:53995372 original size:71 final size:72
Alignment explanation
Indices: 53995251--53995539 Score: 492
Period size: 71 Copynumber: 4.0 Consensus size: 72
53995241 GAATGTGACT
* * **
53995251 ATAGCAAATCGCACACATAGTGCTATAGCAAATCGCACACATAGTGCCATAGTAAATCGCACACA
1 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACA
53995316 TAGTG-C
66 TAGTGCC
*
53995322 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTGAATCGCACAC-
1 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACA
53995386 TAGTGCC
66 TAGTGCC
*
53995393 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTGAATCGCACACA
1 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACA
53995458 TAGTGCC
66 TAGTGCC
* *
53995465 ATAGTGAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAACCGCACACA
1 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACA
53995530 TAGTGCC
66 TAGTGCC
53995537 ATA
1 ATA
53995540 TGGTCTTTGC
Statistics
Matches: 208, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
70 5 0.02
71 124 0.60
72 79 0.38
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (72 bp):
ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACA
TAGTGCC
Found at i:53999027 original size:48 final size:48
Alignment explanation
Indices: 53998972--53999289 Score: 265
Period size: 48 Copynumber: 6.8 Consensus size: 48
53998962 AGGGTAAATT
* * * * *
53998972 GCCGATGCCATGTCCTAGACATGGTCTTACATTGGCTCTCATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAAG
* * *
53999020 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTTTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAAG
* *
53999068 GCCGATACCATGT--CTG----GGTCTTACACTAGCTCTCATAAT-AAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATCAAG
* *
53999110 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCGT-ACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC-TCTCATATCAAG
* * * * **
53999158 GCCGATGTCACGTCCCAGACATGGTCTTACACTGGCTCTCATAACATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAAG
* * * * * * * ***
53999206 GTCGATGCCAAGTTCCAAACATGGTCCTACATTGGCTCTCATATTGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAAG
** ** *
53999254 GCCGACACCATGTTGCAAACATGGTCTTACACTAGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
53999290 ATAGATATCA
Statistics
Matches: 218, Mismatches: 42, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
42 33 0.15
43 1 0.00
44 2 0.01
46 2 0.01
47 3 0.01
48 176 0.81
49 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAAG
Found at i:53999114 original size:42 final size:42
Alignment explanation
Indices: 53999042--53999123 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
53999032 TCCCAGACAT
* * *
53999042 GGTCTTACACTAGCTCTCGTTTCAATGCCGATACCATGTCTG
1 GGTCTTACACTAGCTCTCATATCAAGGCCGATACCATGTCTG
*
53999084 GGTCTTACACTAGCTCTCATAAT-AAGGCCGATGCCATGTC
1 GGTCTTACACTAGCTCTCAT-ATCAAGGCCGATACCATGTC
53999124 CCAGACATGG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 34 0.97
43 1 0.03
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (42 bp):
GGTCTTACACTAGCTCTCATATCAAGGCCGATACCATGTCTG
Found at i:54000679 original size:40 final size:40
Alignment explanation
Indices: 54000635--54000741 Score: 160
Period size: 40 Copynumber: 2.7 Consensus size: 40
54000625 GTACATAGTC
*
54000635 GAAGCTATCTCAAATCGCACACTAAGTGCCATATATAGCT
1 GAAGCTATGTCAAATCGCACACTAAGTGCCATATATAGCT
*
54000675 GAAGCTATGTCAAATCACACACTAAGTGCCATATATAGCT
1 GAAGCTATGTCAAATCGCACACTAAGTGCCATATATAGCT
* ** *
54000715 CAAGCTATGTCGTATCGCACAATAAGT
1 GAAGCTATGTCAAATCGCACACTAAGT
54000742 TTCACAAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (40 bp):
GAAGCTATGTCAAATCGCACACTAAGTGCCATATATAGCT
Found at i:54006295 original size:40 final size:40
Alignment explanation
Indices: 54006183--54006313 Score: 138
Period size: 40 Copynumber: 3.3 Consensus size: 40
54006173 TTGATATCTT
* * * * *
54006183 GCACACTAAGTGCCTTACATAGCTGAAGCTATCTCAAATC
1 GCACACTAAGTACCATATATAGCTGAAGCTATGTCGAATC
* * *
54006223 GTACACTAAGTGCCATATACAG-TCGAAGCTATGTCGAATC
1 GCACACTAAGTACCATATATAGCT-GAAGCTATGTCGAATC
* * *
54006263 ACACACTTAGTACCATATATAGCTGAAGCTATGTCGTATC
1 GCACACTAAGTACCATATATAGCTGAAGCTATGTCGAATC
*
54006303 GCACATTAAGT
1 GCACACTAAGT
54006314 GGCACAAATA
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (40 bp):
GCACACTAAGTACCATATATAGCTGAAGCTATGTCGAATC
Found at i:54013289 original size:29 final size:29
Alignment explanation
Indices: 54013257--54013358 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
54013247 ATAGTGAATC
*
54013257 CGCACACTTAGTGCTATATATTTTTAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
54013286 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
54013315 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
54013344 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54013359 GTACAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:54020818 original size:29 final size:29
Alignment explanation
Indices: 54020786--54020917 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
54020776 ATAGTGAATC
54020786 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
54020815 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
54020845 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
54020874 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
54020903 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54020918 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:54020927 original size:59 final size:59
Alignment explanation
Indices: 54020786--54020917 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
54020776 ATAGTGAATC
54020786 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
54020845 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
54020903 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54020918 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:54027430 original size:42 final size:43
Alignment explanation
Indices: 54027384--54027494 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 43
54027374 GATTTACGTA
* *
54027384 TAAGACCATGTCTGGGACATCGGCATCG-TATTTG-ATTTCATG
1 TAAGACCCTGTCTGGGACATCGGCATCGATA-TTGAATTACATG
* * ** *
54027426 TAAGACCCTGTTTAGGACAGAGGCATTGATATTGAATTACATG
1 TAAGACCCTGTCTGGGACATCGGCATCGATATTGAATTACATG
* *
54027469 TAAGACCCCGTCTGGGACGTCGGCAT
1 TAAGACCCTGTCTGGGACATCGGCAT
54027495 TATACTTGCT
Statistics
Matches: 54, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
42 25 0.46
43 29 0.54
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (43 bp):
TAAGACCCTGTCTGGGACATCGGCATCGATATTGAATTACATG
Found at i:54048491 original size:29 final size:29
Alignment explanation
Indices: 54048451--54048553 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
54048441 GTTGAGAGAT
*
54048451 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
54048480 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
54048509 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
54048538 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
54048554 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:54052747 original size:46 final size:46
Alignment explanation
Indices: 54052691--54052860 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
54052681 TGGTTGACCA
*
54052691 TCCGAACTCGTTGAGTTAAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* *
54052737 TCCGAACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCGAA-T--G
* *
54052782 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* *
54052830 -CCCAAGCTCATTGAGTTGAGTCCGAGTTCAC
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCAC
54052861 TTAGGGGCGG
Statistics
Matches: 103, Mismatches: 9, Indels: 24
0.76 0.07 0.18
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 5 0.05
46 51 0.50
47 28 0.27
48 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
Found at i:54052848 original size:93 final size:93
Alignment explanation
Indices: 54052689--54052858 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
54052679 GATGGTTGAC
* * *
54052689 CATCCGAACTCGTTGAGTTAAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTAAGTCCGAGTTCACCTATGGATGCGAACGTCCCAACTCATTGAGTT
54052754 GAGTCCGAGTTCGTGAGATGTAACTAGG
66 GAGTCCGAGTTCGTGAGATGTAACTAGG
* *
54052782 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCATTGAGT
1 CATCCGAACTCGTTGAGTTAAGTCCGAGTTCACCTATGGATGCGAACGTCCCAA-CTCATTGAGT
54052846 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
54052859 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTAAGTCCGAGTTCACCTATGGATGCGAACGTCCCAACTCATTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAGG
Found at i:54061087 original size:30 final size:30
Alignment explanation
Indices: 54061051--54061181 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
54061041 GACAAGATTG
* * * * *
54061051 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
54061081 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
54061109 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
54061139 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
54061168 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
54061182 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:54061142 original size:58 final size:58
Alignment explanation
Indices: 54061051--54061181 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
54061041 GACAAGATTG
* * * * * *
54061051 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
54061109 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
54061168 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
54061182 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:54069040 original size:30 final size:30
Alignment explanation
Indices: 54069004--54069134 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
54068994 GACAAGATTG
* * * * *
54069004 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
54069034 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
54069062 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
54069092 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
54069121 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
54069135 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:54069095 original size:58 final size:58
Alignment explanation
Indices: 54069004--54069134 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
54068994 GACAAGATTG
* * * * * *
54069004 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
54069062 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
54069121 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
54069135 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:54082299 original size:47 final size:48
Alignment explanation
Indices: 54082229--54082360 Score: 194
Period size: 47 Copynumber: 2.8 Consensus size: 48
54082219 CTCAATCGAT
* *
54082229 AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTTATC-CCG
1 AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCTCCA
* *
54082276 GAGTACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCCTCTCCA
1 AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCTCCA
* * *
54082324 AAATACCTATACCATGGCCGGTAGCCGAATCAAGGTA
1 AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGTA
54082361 TAACTCGCAC
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
47 41 0.54
48 35 0.46
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCTCCA
Found at i:54091516 original size:20 final size:20
Alignment explanation
Indices: 54091491--54091528 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
54091481 GTTTATTCGC
*
54091491 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
54091511 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
54091529 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:54094523 original size:43 final size:43
Alignment explanation
Indices: 54094395--54094600 Score: 152
Period size: 43 Copynumber: 4.7 Consensus size: 43
54094385 GCCGCAAAAA
* *
54094395 TTAGCGGCG-TTTGTTTGAAAAAATGCCGCT-AAAGATCAT-GACTT
1 TTAGCGGCGCTTT-TTT-AAAAAACGCCGCTAAAAG-TCATGGTC-T
* * * ** * *
54094439 TTAGTGGCGCTTTTTCT-AAAAACGCTGCCAATGGTCCTGGTCA
1 TTAGCGGCGCTTTTT-TAAAAAACGCCGCTAAAAGTCATGGTCT
* * *
54094482 TTCGCGGCGCTTTTTTAAAAAACACCGCTAAAAGTCTTGGTCT
1 TTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAAGTCATGGTCT
* * * * *
54094525 TTAGTGGCGCTTTTATAAAAAGCGTCGCTAAAAGTCATGATCT
1 TTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAAGTCATGGTCT
54094568 TTAGCGGC-CTTTTTTTCAAACAAACGCCGCTAA
1 TTAGCGGCGC-TTTTTT-AAA-AAACGCCGCTAA
54094601 TTTGCCCAGT
Statistics
Matches: 124, Mismatches: 30, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
42 2 0.02
43 91 0.73
44 17 0.14
45 14 0.11
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (43 bp):
TTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAAGTCATGGTCT
Found at i:54098557 original size:12 final size:12
Alignment explanation
Indices: 54098540--54098565 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
54098530 GTCATCCTCC
54098540 TCATCAGATTCA
1 TCATCAGATTCA
54098552 TCATCAGATTCA
1 TCATCAGATTCA
54098564 TC
1 TC
54098566 CCTGGATCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:54100412 original size:9 final size:9
Alignment explanation
Indices: 54100398--54100525 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
54100388 ATGTATTAGT
54100398 TAAGTTATG
1 TAAGTTATG
54100407 TAAGTTGTTATG
1 TAA---GTTATG
*
54100419 TACGTTATG
1 TAAGTTATG
*
54100428 TGAGTTATG
1 TAAGTTATG
*
54100437 TAAATTATG
1 TAAGTTATG
54100446 TAAGTTATG
1 TAAGTTATG
*
54100455 TGAGTTATG
1 TAAGTTATG
54100464 TAAGTTGTTATG
1 TAA---GTTATG
*
54100476 TAAATTATG
1 TAAGTTATG
*
54100485 TAAGTTATA
1 TAAGTTATG
*
54100494 TCAGTTATG
1 TAAGTTATG
54100503 TAAGTTATG
1 TAAGTTATG
* *
54100512 TAATTTATT
1 TAAGTTATG
54100521 TAAGT
1 TAAGT
54100526 AATGATCAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 79 0.82
12 17 0.18
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:54100525 original size:57 final size:57
Alignment explanation
Indices: 54100398--54100525 Score: 175
Period size: 57 Copynumber: 2.2 Consensus size: 57
54100388 ATGTATTAGT
** * *
54100398 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* * *
54100455 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATCAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* *
54100512 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
54100526 AATGATCAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
Found at i:54101367 original size:23 final size:23
Alignment explanation
Indices: 54101341--54101390 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
54101331 GTTCAAGTTT
54101341 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
54101364 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
54101387 ATTT
1 ATTT
54101391 GATTAATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (23 bp):
ATTTAAAGGGCTGCAATTCATAC
Found at i:54104334 original size:74 final size:74
Alignment explanation
Indices: 54104214--54104373 Score: 168
Period size: 75 Copynumber: 2.2 Consensus size: 74
54104204 ATTTCAAACC
*
54104214 TTTTGTGGCG--TTTATAAAGGCACCACTAATAAAAGACTATAAAACGACCACGTTTTGAAATCT
1 TTTTGTGGCGTTTTTATAAAAGCACCACTAATAAAAGACTATAAAACGACCACGTTTTGAAATCT
54104277 CTT-TAAAT
66 CTTATAAAT
* * * ** *
54104285 GTTTTGTGGCGTTTTTATAAAAAGCGCCACTAATAACAAG-GTA-ATAACGACGTCGTTTTGCAA
1 -TTTTGTGGCGTTTTTAT-AAAAGCACCACTAATAA-AAGACTATAAAACGACCACGTTTTGAAA
* *
54104348 TCTGTTAATAGAT
63 TCTCTT-ATAAAT
54104361 TTTTGTGGCGTTT
1 TTTTGTGGCGTTT
54104374 GTTGAGCAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
72 10 0.14
74 26 0.36
75 30 0.41
76 7 0.10
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (74 bp):
TTTTGTGGCGTTTTTATAAAAGCACCACTAATAAAAGACTATAAAACGACCACGTTTTGAAATCT
CTTATAAAT
Found at i:54106414 original size:49 final size:48
Alignment explanation
Indices: 54106287--54106430 Score: 155
Period size: 49 Copynumber: 2.9 Consensus size: 48
54106277 TCTATTGTGA
* * * *
54106287 GGTCGCATGTGTAGTACTAAGTGCAGACTACTATACGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATATGTA-CC--AGACTGT
* * *
54106338 GATCACGTGTGTAGTACTAAATGCAGGCTACTACT-TGTACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA-TATGTACCAGACTG-T
* *
54106387 GGTCACATGTGTAGTACTAAGTACAGGCTACTATGTGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATATGTACCAGA
54106431 TAGCTTCGGC
Statistics
Matches: 79, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
48 6 0.08
49 39 0.49
50 2 0.03
51 31 0.39
52 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (48 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATATGTACCAGACTGT
Found at i:54107899 original size:2 final size:2
Alignment explanation
Indices: 54107887--54107928 Score: 50
Period size: 2 Copynumber: 21.0 Consensus size: 2
54107877 TTTTACATTA
* *
54107887 AT AT CT AT AT AT AC AT AT AT AT AT AT AT AT CA- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT
54107929 CCATATGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
1 1 0.03
2 32 0.94
3 1 0.03
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:54108003 original size:22 final size:21
Alignment explanation
Indices: 54107978--54108034 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
54107968 ATATTCAAGT
*
54107978 GTTTAAGGGTTTATTGTCTATA
1 GTTTAAGGGTTTATGGT-TATA
* *
54108000 GTTTAAGGTTTTATGGTTTTA
1 GTTTAAGGGTTTATGGTTATA
54108021 GATTT-AGGGTTTAT
1 G-TTTAAGGGTTTAT
54108035 AGTAATTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 12 0.40
22 18 0.60
ACGTcount: A:0.21, C:0.02, G:0.25, T:0.53
Consensus pattern (21 bp):
GTTTAAGGGTTTATGGTTATA
Found at i:54108188 original size:21 final size:21
Alignment explanation
Indices: 54108164--54108206 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
54108154 TTTAGAATTC
*
54108164 AAGGTTTA-ATATTTAGGGTTT
1 AAGGTTTACA-ATTTAAGGTTT
54108185 AAGGTTTACAATTTAAGGTTT
1 AAGGTTTACAATTTAAGGTTT
54108206 A
1 A
54108207 TGACTAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
AAGGTTTACAATTTAAGGTTT
Found at i:54108496 original size:40 final size:40
Alignment explanation
Indices: 54108441--54108551 Score: 163
Period size: 40 Copynumber: 2.8 Consensus size: 40
54108431 CTATTTAATC
54108441 TTTTAGCGGCGTTTTTTAAAAAGCGCCGCTATAAG-TCGAT
1 TTTTAGCGGCGTTTTTTAAAAAGCGCCGCTATAAGAT-GAT
* *
54108481 TTTTAGTGGCGTTTTTTAGAAAGCGCCGCTATAAGATGAT
1 TTTTAGCGGCGTTTTTTAAAAAGCGCCGCTATAAGATGAT
*
54108521 TTTTAGCGGCGTTTTCTAGAAAA-CGCCGCTA
1 TTTTAGCGGCGTTTTTTA-AAAAGCGCCGCTA
54108552 ATGCAATTGA
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
40 60 0.94
41 4 0.06
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.35
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTTTAAAAAGCGCCGCTATAAGATGAT
Found at i:54112723 original size:31 final size:31
Alignment explanation
Indices: 54112688--54112751 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
54112678 CCTTTTCATG
54112688 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
54112719 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
54112750 TT
1 TT
54112752 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:54112994 original size:24 final size:24
Alignment explanation
Indices: 54112943--54113085 Score: 191
Period size: 24 Copynumber: 6.0 Consensus size: 24
54112933 GCTTTATCAT
*
54112943 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
54112968 ATAACTAGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
54112992 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
54113015 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
54113039 ATAACTGAGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
54113063 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
54113086 TCACTTCCTC
Statistics
Matches: 107, Mismatches: 9, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
23 23 0.21
24 73 0.68
25 11 0.10
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:54113026 original size:47 final size:48
Alignment explanation
Indices: 54112943--54113084 Score: 189
Period size: 47 Copynumber: 3.0 Consensus size: 48
54112933 GCTTTATCAT
* * *
54112943 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTAGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
54112992 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
* *
54113039 ATAACTGAGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
54113085 TTCACTTCCT
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
47 42 0.49
48 31 0.36
49 12 0.14
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:54113043 original size:71 final size:72
Alignment explanation
Indices: 54112942--54113085 Score: 204
Period size: 71 Copynumber: 2.0 Consensus size: 72
54112932 TGCTTTATCA
*
54112942 TATAACTGGAGGCCTAGCCTCTTTTAATAACT-AGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGA-GGCAAAAGCCCTTTCAATAACTGGGGCATA
54113006 AGCCCTTT
65 AGCCCTTT
* * **
54113014 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGAGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGAGGCAAAAGCCCTTTCAATAACTGGGGCATA
54113077 AGCCCTTT
65 AGCCCTTT
54113085 T
1 T
54113086 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
71 51 0.78
72 14 0.22
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGAGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:54113160 original size:20 final size:20
Alignment explanation
Indices: 54113135--54113195 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
54113125 TTATGATTAC
54113135 ATCATGTGCATCTCATACAT
1 ATCATGTGCATCTCATACAT
*
54113155 ATCATGTGCATATCATACAT
1 ATCATGTGCATCTCATACAT
*
54113175 GTCATGTGCATCTCATACAT
1 ATCATGTGCATCTCATACAT
54113195 A
1 A
54113196 CCATATTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATCTCATACAT
Found at i:54113270 original size:25 final size:25
Alignment explanation
Indices: 54113238--54113285 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
54113228 ATACATAAAC
* * *
54113238 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
54113263 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
54113286 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:54113721 original size:8 final size:8
Alignment explanation
Indices: 54113708--54113743 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
54113698 AAATGCCAGA
54113708 ATTTCGGC
1 ATTTCGGC
54113716 ATTTCGGC
1 ATTTCGGC
*
54113724 TTTTCGGC
1 ATTTCGGC
*
54113732 TTTTCGGC
1 ATTTCGGC
54113740 ATTT
1 ATTT
54113744 TATCACTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.08, C:0.22, G:0.22, T:0.47
Consensus pattern (8 bp):
ATTTCGGC
Found at i:54115037 original size:29 final size:29
Alignment explanation
Indices: 54114995--54115085 Score: 173
Period size: 29 Copynumber: 3.1 Consensus size: 29
54114985 CAGGATGTTA
54114995 CACTAAGTGTGCATGCTGGAAATATATGG
1 CACTAAGTGTGCATGCTGGAAATATATGG
54115024 CACTAAGTGTGCATGCTGGAAATATATGG
1 CACTAAGTGTGCATGCTGGAAATATATGG
*
54115053 CACTAAGTGTGCATGCTGGAAATATACGG
1 CACTAAGTGTGCATGCTGGAAATATATGG
54115082 CACT
1 CACT
54115086 GGGTCTGCGA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.26
Consensus pattern (29 bp):
CACTAAGTGTGCATGCTGGAAATATATGG
Found at i:54115110 original size:58 final size:58
Alignment explanation
Indices: 54114995--54115122 Score: 159
Period size: 58 Copynumber: 2.2 Consensus size: 58
54114985 CAGGATGTTA
* * * *
54114995 CACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATGG
1 CACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTCTGCATGCTCGAAAGATATGG
** * *
54115053 CACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTCTGCGA-GCTCGAAGGGTATGG
1 CACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTCTGC-ATGCTCGAAAGATATGG
*
54115111 CACTATGTGTGC
1 CACTAAGTGTGC
54115123 GGGCTTAAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
58 59 0.98
59 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (58 bp):
CACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTCTGCATGCTCGAAAGATATGG
Found at i:54118780 original size:42 final size:42
Alignment explanation
Indices: 54118733--54118818 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
54118723 GTGATCCGAA
**
54118733 ATAGTTTGAAGGTAGCTTAAGATTAGCAGAAATCATATGTGG
1 ATAGTTTGAAGAAAGCTTAAGATTAGCAGAAATCATATGTGG
54118775 ATAGTTTGAAGAAAGCTTAAGATTAGCAGAAATCATATGTGG
1 ATAGTTTGAAGAAAGCTTAAGATTAGCAGAAATCATATGTGG
54118817 AT
1 AT
54118819 CTTAAACGTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.30
Consensus pattern (42 bp):
ATAGTTTGAAGAAAGCTTAAGATTAGCAGAAATCATATGTGG
Found at i:54125195 original size:21 final size:20
Alignment explanation
Indices: 54125153--54125194 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
54125143 CTCTGTAGTA
*
54125153 TTGAAAAATTTTAATGCTTT
1 TTGAAAAATTTTAAGGCTTT
* *
54125173 TTGAAAAATTTTTAGGGTTT
1 TTGAAAAATTTTAAGGCTTT
54125193 TT
1 TT
54125195 TATTTAGTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.52
Consensus pattern (20 bp):
TTGAAAAATTTTAAGGCTTT
Found at i:54131290 original size:40 final size:40
Alignment explanation
Indices: 54131245--54131373 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
54131235 CGGAATACAA
54131245 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
54131285 CCGGATAGAATGACTCGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
54131324 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
54131364 CCGGATATAA
1 CCGGATATAA
54131374 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
38 2 0.03
39 31 0.42
40 41 0.55
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:54131351 original size:39 final size:40
Alignment explanation
Indices: 54131261--54131370 Score: 138
Period size: 39 Copynumber: 2.8 Consensus size: 40
54131251 ATAACCACGT
*
54131261 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
54131301 GCACGAATGCCTTC-GGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
*
54131340 GCAC-AATTGCCTTCGGGTCTTAACCCGGATA
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATA
54131371 TAATTTCCAG
Statistics
Matches: 62, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
37 1 0.02
38 4 0.06
39 29 0.47
40 28 0.45
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:54139299 original size:40 final size:40
Alignment explanation
Indices: 54139254--54139383 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
54139244 CGGAATACAA
54139254 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
54139294 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
54139334 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
54139374 CCGGATATAA
1 CCGGATATAA
54139384 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:54139398 original size:40 final size:40
Alignment explanation
Indices: 54139254--54139416 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
54139244 CGGAATACAA
* **
54139254 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
54139294 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
54139334 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * *
54139374 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
54139413 CCGG
1 CCGG
54139417 TATCATTCAA
Statistics
Matches: 100, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
39 11 0.11
40 89 0.89
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:54141769 original size:37 final size:38
Alignment explanation
Indices: 54141651--54141786 Score: 117
Period size: 36 Copynumber: 3.7 Consensus size: 38
54141641 TTCGAATGAT
* *
54141651 ACCGGGCTAAGTCCCGAAGGCATTTGATGCTATGGA-TATA
1 ACCGGGCTAAG-CCCGAAGGCATTTG-TGCGA-GTATTATA
* * *
54141691 TCCGGGTTAA-CCCGAAGGCATTTGTGCG-G--TTACAA
1 ACCGGGCTAAGCCCGAAGGCATTTGTGCGAGTATTA-TA
*
54141726 ATCCGGGTTAAGCCCGAAGGCA-TTGTGCGAGTATTATA
1 A-CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTATTATA
54141764 ACCGGGCT-AGCCCGAAGGC-TTTG
1 ACCGGGCTAAGCCCGAAGGCATTTG
54141787 CGAGTGTATA
Statistics
Matches: 81, Mismatches: 7, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
34 2 0.02
35 2 0.02
36 30 0.37
37 20 0.25
38 16 0.20
39 3 0.04
40 8 0.10
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (38 bp):
ACCGGGCTAAGCCCGAAGGCATTTGTGCGAGTATTATA
Found at i:54147461 original size:40 final size:40
Alignment explanation
Indices: 54147406--54147569 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
54147396 TGAATGATAC
* * *
54147406 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
54147446 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
54147486 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
54147526 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
54147566 CCGG
1 CCGG
54147570 TTAAATCCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
39 3 0.03
40 95 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:54155643 original size:79 final size:79
Alignment explanation
Indices: 54155511--54155676 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
54155501 CATTTGAATG
* * * **
54155511 ATATCCGGGCTAAGTCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-A
1 ATATCCGGGCTAAGCCCGAAGGCAATTATGCAAGTGACCATATCCGGGCTAAGACCCGAAGGCAA
*
54155575 TTCGTGCGAGTTGTT
66 TT-GTGCGAGTGGTT
* * *
54155590 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCA-ATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAG-CCCGAAGGCAATTATGCAAGTGACCATATCCGGGCTAAGACCCGAAGGCA
**
54155654 ATTGTGCTTGTGGTT
65 ATTGTGCGAGTGGTT
54155669 ATATCCGG
1 ATATCCGG
54155677 TTAAATCCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
79 52 0.70
80 22 0.30
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTATGCAAGTGACCATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCGAGTGGTT
Found at i:54155690 original size:39 final size:40
Alignment explanation
Indices: 54155511--54155676 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
54155501 CATTTGAATG
* * *
54155511 ATATCCGGGCTAAG-TCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
54155550 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * **
54155590 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * *
54155630 A-ATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
54155669 ATATCCGG
1 ATATCCGG
54155677 TTAAATCCCG
Statistics
Matches: 106, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
39 49 0.46
40 52 0.49
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:54158087 original size:39 final size:39
Alignment explanation
Indices: 54158033--54158138 Score: 99
Period size: 40 Copynumber: 2.7 Consensus size: 39
54158023 GAGTCACGTA
*
54158033 CCTTCGGGAT-TTAACCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCGGATATAACAACAAGCACAATTG
*** **
54158072 CCTTCGGGTCTTAACCCGGAT-TGGGTAACTTGCACAATTG
1 CCTTCGGGTCTTAA-CCGGATAT-AACAACAAGCACAATTG
*
54158112 CCTTCGGGTCTTAGCCCGGATATAACA
1 CCTTCGGGTCTTA-ACCGGATATAACA
54158139 GTACTAGTAT
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
38 1 0.02
39 13 0.25
40 37 0.71
41 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCTTCGGGTCTTAACCGGATATAACAACAAGCACAATTG
Found at i:54158774 original size:40 final size:40
Alignment explanation
Indices: 54158716--54158807 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
54158706 AGCGGCGCTT
* *
54158716 TTAGTGGCGTTTTAACAAAAAAGGCCACTAAAAAA-GAGCA
1 TTAGTGGCGCTTCAAC-AAAAAGGCCACTAAAAAACGAGCA
* * *
54158756 TTAGTGGCGCTTCCACAAAAATGCCACTAAAAAACTAGCA
1 TTAGTGGCGCTTCAACAAAAAGGCCACTAAAAAACGAGCA
*
54158796 TTAGCGGCGCTT
1 TTAGTGGCGCTT
54158808 ATAAGGAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 17 0.38
40 28 0.62
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.22
Consensus pattern (40 bp):
TTAGTGGCGCTTCAACAAAAAGGCCACTAAAAAACGAGCA
Found at i:54158879 original size:41 final size:39
Alignment explanation
Indices: 54158794--54158885 Score: 105
Period size: 41 Copynumber: 2.3 Consensus size: 39
54158784 AAAAAACTAG
* *
54158794 CATTAGCGGCGCTTATAAGGAAAACCGCTATATGTTGAG
1 CATTAGCGGCGCTTATAAGGAAAACCACTATATGTTGAC
* * *
54158833 AATTAGCGGCGCTTATATGAGAAACGCCACTATA-GCTTGAC
1 CATTAGCGGCGCTTATAAG-GAAA-ACCACTATATG-TTGAC
54158874 CATTAGCGGCGC
1 CATTAGCGGCGC
54158886 CTTGGAGAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
39 17 0.39
40 5 0.11
41 22 0.50
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (39 bp):
CATTAGCGGCGCTTATAAGGAAAACCACTATATGTTGAC
Found at i:54159368 original size:14 final size:14
Alignment explanation
Indices: 54159351--54159389 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
54159341 ATCATTATAG
54159351 TTTAGGGTTTATGA
1 TTTAGGGTTTATGA
*
54159365 TTTAGGGTATATGA
1 TTTAGGGTTTATGA
*
54159379 TTCAGGGTTTA
1 TTTAGGGTTTA
54159390 AGGTGTAGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.23, C:0.03, G:0.28, T:0.46
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:54159527 original size:14 final size:15
Alignment explanation
Indices: 54159508--54159548 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
54159498 GTCGGATTAG
54159508 GGGTTAGGGGTTTA-
1 GGGTTAGGGGTTTAT
*
54159522 GGGTTAAGGGTTTAT
1 GGGTTAGGGGTTTAT
*
54159537 GGTTTAGGGGTT
1 GGGTTAGGGGTT
54159549 AGAGTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.39
Consensus pattern (15 bp):
GGGTTAGGGGTTTAT
Found at i:54159555 original size:21 final size:21
Alignment explanation
Indices: 54159516--54159556 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
54159506 AGGGGTTAGG
*
54159516 GGTTTAGGGTTAAGGGTTTAT
1 GGTTTAGGGTTAAGAGTTTAT
54159537 GGTTTAGGGGTT-AGAGTTTA
1 GGTTTA-GGGTTAAGAGTTTA
54159557 ATTAGATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (21 bp):
GGTTTAGGGTTAAGAGTTTAT
Found at i:54160674 original size:158 final size:157
Alignment explanation
Indices: 54160343--54160682 Score: 384
Period size: 158 Copynumber: 2.2 Consensus size: 157
54160333 AAAATTAAGA
* * * * *
54160343 GATTAGTGGCATTTTTTAAAAAAACGCCGCAAAAAATAGTATAGTTGAAAGAAAACGGCGTCGTT
1 GATTAGCGGCGTTTTTTAAAAAAACGCCACAAAAAACAGTATAGTTGAAAGAAAACGGCGCCGTT
* * *
54160408 TTAGTTGGATAGAGTATTAGTGGCATTTTGAAAAACACCGCAACAGAAGTAAAGTGTACTGGAAG
66 TTAGTT-GATAGAGTATTAGTGGCATTTTGAAAAACACCACAAAAGAAGTAAAGTGTACTAGAAG
54160473 CGTCGTCGTTTTAGTTGAATATATAGGG
130 CGTCGTCGTTTTAGTTGAATATATAGGG
* * * * * *
54160501 GATTAGCAGCG-TTTTTATAGAAAATGCCACAAAAGACAGTTTAGTTTAAAGAAAACGGCGCCGT
1 GATTAGCGGCGTTTTTTA-AAAAAACGCCACAAAAAACAGTATAGTTGAAAGAAAACGGCGCCGT
* * * * * * *
54160565 TTTAGTAT-ATGAGGGTATTAGTGGCGCTTTT-AAAAACGCCACAAAATAATTAAAGTTTACTAT
65 TTTAGT-TGAT-AGAGTATTAGTGGC-ATTTTGAAAAACACCACAAAAGAAGTAAAGTGTACTAG
*
54160628 ACA-CGTTGTCGTTTTAGTTGAATATATA-GG
127 A-AGCGTCGTCGTTTTAGTTGAATATATAGGG
*
54160658 GATTAGCGGCGTTTTTTAAATAAAC
1 GATTAGCGGCGTTTTTTAAAAAAAC
54160683 ATCGCAAAAA
Statistics
Matches: 150, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
157 24 0.16
158 120 0.80
159 6 0.04
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (157 bp):
GATTAGCGGCGTTTTTTAAAAAAACGCCACAAAAAACAGTATAGTTGAAAGAAAACGGCGCCGTT
TTAGTTGATAGAGTATTAGTGGCATTTTGAAAAACACCACAAAAGAAGTAAAGTGTACTAGAAGC
GTCGTCGTTTTAGTTGAATATATAGGG
Found at i:54163003 original size:41 final size:41
Alignment explanation
Indices: 54162946--54163128 Score: 223
Period size: 41 Copynumber: 4.5 Consensus size: 41
54162936 AGCTTGGGTT
*
54162946 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAATTA
1 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTA
*
54162987 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTT
1 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTA
* * *
54163028 CGAAGGGCTTTTGAGCCAGTG-TCATAACCGGACTTAGTTC
1 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTA
* * * *
54163068 CGAAGGGCCTTCGAGCCAGTGGCCTAAT--CCGAGCTTGGTCT-
1 CGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGT-TA
54163109 CGAAGGGC-TTTGAGCCAGTG
1 CGAAGGGCTTTTGAGCCAGTG
54163129 TTAAGAATCA
Statistics
Matches: 126, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 44 0.35
41 77 0.61
42 1 0.01
43 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTA
Found at i:54163084 original size:81 final size:81
Alignment explanation
Indices: 54162930--54163129 Score: 244
Period size: 81 Copynumber: 2.5 Consensus size: 81
54162920 TCGGGGTGTA
* * *
54162930 AATCCGAGCTTGGGTTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAATTACGAAGGGC
1 AATCCGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTG-TAATAACCGAACTTAATTACGAAGGGC
* *
54162995 TTTTGAGCCAGT-G-CT
65 CTTCGAGCCAGTGGCCT
* * * *
54163010 AATAACCGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTGTCATAACCGGACTTAGTTCCGAAGGG
1 AAT--CCGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTGTAATAACCGAACTTAATTACGAAGGG
54163075 CCTTCGAGCCAGTGGCCT
64 CCTTCGAGCCAGTGGCCT
* * *
54163093 AATCCGAGCTTGGTCTCGAAGGGC-TTTGAGCCAGTGT
1 AATCCGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTGT
54163130 TAAGAATCAT
Statistics
Matches: 104, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
80 16 0.15
81 51 0.49
82 32 0.31
83 5 0.05
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
AATCCGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTGTAATAACCGAACTTAATTACGAAGGGCC
TTCGAGCCAGTGGCCT
Found at i:54163150 original size:81 final size:75
Alignment explanation
Indices: 54162930--54163155 Score: 202
Period size: 81 Copynumber: 2.8 Consensus size: 75
54162920 TCGGGGTGTA
* *
54162930 AATCCGAGCTTGGGTTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAATTACGAAGGGC
1 AATCCGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTG-TAATAA-C-AGCTT-ATTCCGAAGGGC
* *
54162995 TTTTGAGCCAGTGCT
61 CTTCGAGCCAGTGCT
* * * *
54163010 AATAACCGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTGTCATAACCGGACTTAGTTCCGAAGGG
1 AAT--CCGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTGTAATAA-CAG-CTTA-TTCCGAAGGG
54163075 CCTTCGAGCCAGTGGCCT
60 CCTTCGAGCCAGT-G-CT
*
54163093 AATCCGAGCTTGGTCTCGAAGGGC-TTTGAGCCAGTGTTAAGAATCATGCTTGATTCCGAAGGG
1 AATCCGAGCTTGGT-TCGAAGGGCTTTTGAGCCAGTG-TAATAA-CA-GCTT-ATTCCGAAGGG
54163156 TGGTTGTGCC
Statistics
Matches: 121, Mismatches: 15, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
80 18 0.15
81 64 0.53
82 34 0.28
83 5 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (75 bp):
AATCCGAGCTTGGTTCGAAGGGCTTTTGAGCCAGTGTAATAACAGCTTATTCCGAAGGGCCTTCG
AGCCAGTGCT
Found at i:54167277 original size:98 final size:99
Alignment explanation
Indices: 54167108--54167390 Score: 425
Period size: 98 Copynumber: 2.9 Consensus size: 99
54167098 GTGTTTACTT
* *
54167108 AAATTAATAAACGCAAATTAAAAGAAAGACTTAACAAGTTTAATGTCATTAATTTAAATATTTTA
1 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGGTTAATGTCATTAATTTAAATATTTTA
*
54167173 TTTTATTTTTATATTACCTAATTTTTAAATTAA-
66 TTTTATTTTTAAATTACCTAATTTTTAAATTAAC
54167206 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGGTTAATGTCATTAATTTAAATATTTTA
1 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGGTTAATGTCATTAATTTAAATATTTTA
54167271 TTTTATTTTTAAATTACCTAATTTTTAAATTAAC
66 TTTTATTTTTAAATTACCTAATTTTTAAATTAAC
* * ** *
54167305 AAATTAATAAATGCAAATTAAAAGAAAGACTTGACAATGCTTAAAAT-ATT--TTGT--CTACTT
1 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAA-GGTTAATGTCATTAATT-TAAATA-TT
54167365 TTATTTTATTTTTAAATTACCTAATT
63 TTATTTTATTTTTAAATTACCTAATT
54167391 AAATTAAATT
Statistics
Matches: 173, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
96 2 0.01
97 30 0.17
98 96 0.55
99 39 0.23
100 6 0.03
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (99 bp):
AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGGTTAATGTCATTAATTTAAATATTTTA
TTTTATTTTTAAATTACCTAATTTTTAAATTAAC
Found at i:54167309 original size:16 final size:16
Alignment explanation
Indices: 54167275--54167309 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
54167265 ATTTTATTTT
* *
54167275 ATTTTTAAATTACCTA
1 ATTTTTAAATTAACAA
54167291 ATTTTTAAATTAACAA
1 ATTTTTAAATTAACAA
54167307 ATT
1 ATT
54167310 AATAAATGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTTTTAAATTAACAA
Found at i:54167610 original size:91 final size:91
Alignment explanation
Indices: 54167353--54167897 Score: 893
Period size: 91 Copynumber: 6.0 Consensus size: 91
54167343 GCTTAAAATA
54167353 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
*
54167418 TTATTTTATTTTAATCAGGAAAAAAC
66 TTATTTTATTTTAATCACGAAAAAAC
* *
54167444 TTTTGTCAAATTTTA--TT-TTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
*
54167506 TTATTTTATTTTAATCACGAAAAAGC
66 TTATTTTATTTTAATCACGAAAAAAC
* *
54167532 CTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAAGTAAATTGTATTTAAAGTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
* * *
54167597 TTATTTTATTTTAATTAGGGAAAATA-
66 TTATTTTATTTTAATCA-CGAAAAAAC
*
54167623 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAATAAATTAAATTGTATTTAAAGTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
54167688 TTATTTTATTTTAATCACGAAAAAAC
66 TTATTTTATTTTAATCACGAAAAAAC
* *
54167714 CTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAAGTAAATTGTATTTAAAGTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
* *
54167779 TTATTTTATTTTAATTAGGAAAAATA-
66 TTATTTTATTTTAATCACGAAAAA-AC
* *
54167805 TTTTGTCTACTTTTATTTTATTTTCAAATTACCTAAATAAATTAAATTGTATTTAAAGTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
54167870 TTATTTTATTTTAATCACGAAAAAAC
66 TTATTTTATTTTAATCACGAAAAAAC
54167896 TT
1 TT
54167898 GTAAATAATT
Statistics
Matches: 418, Mismatches: 29, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
88 81 0.19
89 2 0.00
90 9 0.02
91 320 0.77
92 6 0.01
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.53
Consensus pattern (91 bp):
TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
TTATTTTATTTTAATCACGAAAAAAC
Found at i:54168104 original size:18 final size:18
Alignment explanation
Indices: 54168081--54168181 Score: 82
Period size: 18 Copynumber: 5.5 Consensus size: 18
54168071 ATATCATATT
*
54168081 TTACATAATTTATATAAC
1 TTACATAATTTACATAAC
54168099 TTACATAA--TACATAAAC
1 TTACATAATTTACAT-AAC
* *
54168116 ATATATCAT-TTCTTACATAAT
1 -T-TA-CATAAT-TTACATAAC
***
54168137 TTACATAATTCGGATAAC
1 TTACATAATTTACATAAC
54168155 TTACATAATTTACATAAC
1 TTACATAATTTACATAAC
54168173 TTACATAAT
1 TTACATAAT
54168182 ACATAAATAT
Statistics
Matches: 64, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
16 4 0.06
17 3 0.05
18 41 0.64
19 5 0.08
20 4 0.06
21 2 0.03
22 5 0.08
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.40
Consensus pattern (18 bp):
TTACATAATTTACATAAC
Found at i:54168142 original size:9 final size:9
Alignment explanation
Indices: 54168128--54168181 Score: 63
Period size: 9 Copynumber: 6.0 Consensus size: 9
54168118 ATATCATTTC
54168128 TTACATAAT
1 TTACATAAT
54168137 TTACATAAT
1 TTACATAAT
*** *
54168146 TCGGATAAC
1 TTACATAAT
54168155 TTACATAAT
1 TTACATAAT
*
54168164 TTACATAAC
1 TTACATAAT
54168173 TTACATAAT
1 TTACATAAT
54168182 ACATAAATAT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.39
Consensus pattern (9 bp):
TTACATAAT
Found at i:54174053 original size:31 final size:31
Alignment explanation
Indices: 54174013--54174071 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
54174003 TTTATGCGAC
* *
54174013 ATTTGCTATTTTTGGTTGGATTTCATGCTAT
1 ATTTGCTATTTTTGGTTCGATTTAATGCTAT
*
54174044 ATTTTCTATTTTTGGTTCGATTTAATGC
1 ATTTGCTATTTTTGGTTCGATTTAATGC
54174072 ATGAAAGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.17, C:0.10, G:0.17, T:0.56
Consensus pattern (31 bp):
ATTTGCTATTTTTGGTTCGATTTAATGCTAT
Found at i:54177151 original size:93 final size:93
Alignment explanation
Indices: 54177023--54177193 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
54177013 GCCCATAAGT
* * *
54177023 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
54177088 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
54177116 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
54177181 CGAGTTCGGATGC
66 CGAGCTCGGATGC
54177194 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:54177190 original size:46 final size:46
Alignment explanation
Indices: 54177015--54177190 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
54177005 TGTAACCCGC
* * *
54177015 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
54177061 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
54177107 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
54177154 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
54177191 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:54181727 original size:40 final size:40
Alignment explanation
Indices: 54181663--54181870 Score: 224
Period size: 40 Copynumber: 5.2 Consensus size: 40
54181653 TCTTCAAAAT
* **
54181663 TTAG-CCGGATATAACCACAAGCAC-AATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTC
* * *** * *
54181702 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
54181742 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
*
54181782 TTAGCCTGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
* * ** * *
54181822 TTAGCCCAGATATAATC-ACTAGCATAAATGCCTTCGAGAC
1 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
54181862 TTAGCCCGG
1 TTAGCCCGG
54181871 GTATCATTCA
Statistics
Matches: 142, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 3 0.02
40 136 0.96
41 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
Found at i:54183137 original size:21 final size:21
Alignment explanation
Indices: 54183111--54183152 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
54183101 AGAACCAAAG
54183111 GATGAAGCTTTTCTTTTCTCT
1 GATGAAGCTTTTCTTTTCTCT
54183132 GATGAAGCTTTTCTTTTCTCT
1 GATGAAGCTTTTCTTTTCTCT
54183153 TTTTTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.19, G:0.14, T:0.52
Consensus pattern (21 bp):
GATGAAGCTTTTCTTTTCTCT
Found at i:54189011 original size:38 final size:38
Alignment explanation
Indices: 54188881--54189003 Score: 129
Period size: 38 Copynumber: 3.2 Consensus size: 38
54188871 GAATCCAGTC
* * * *
54188881 ACCAGCACAAAACCTGCGAGACTTTAAGCTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCAGATATAAT
* * * *
54188921 ACCAGCACTAGGCCTGCGGGATTTAATCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAAT
* *
54188959 ACCCGCACGAAGCCTGCGGGATTTAACCCAGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAAT
*
54188997 TCCAGCA
1 ACCAGCA
54189004 TATAGCCTAC
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
38 46 0.68
39 5 0.07
40 17 0.25
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.21
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAAT
Found at i:54190764 original size:24 final size:24
Alignment explanation
Indices: 54190737--54190820 Score: 159
Period size: 24 Copynumber: 3.5 Consensus size: 24
54190727 GTTATGTTCA
54190737 CACACATAGTGCCATAGTAAATCG
1 CACACATAGTGCCATAGTAAATCG
*
54190761 CACACATAGTGCTATAGTAAATCG
1 CACACATAGTGCCATAGTAAATCG
54190785 CACACATAGTGCCATAGTAAATCG
1 CACACATAGTGCCATAGTAAATCG
54190809 CACACATAGTGC
1 CACACATAGTGC
54190821 ATTTGAGATT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (24 bp):
CACACATAGTGCCATAGTAAATCG
Found at i:54202135 original size:38 final size:38
Alignment explanation
Indices: 54202057--54202183 Score: 164
Period size: 38 Copynumber: 3.3 Consensus size: 38
54202047 ACAAAACTTA
* ** *
54202057 CGGGACTTTAAGCTCAGATATAATACCAGCAATAGGCCTG
1 CGGGA-TTTAA-CTCGGATATAATACCAGCACGAAGCCTG
* *
54202097 CGGGATTTAACTCGGATATAATACTAGCACGAAACCTG
1 CGGGATTTAACTCGGATATAATACCAGCACGAAGCCTG
*
54202135 CGGGATTTAACCCGGATATAATACCAGCACGAAGCCTG
1 CGGGATTTAACTCGGATATAATACCAGCACGAAGCCTG
*
54202173 TGGGATTTAAC
1 CGGGATTTAAC
54202184 CTGAATATAT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 67 0.87
39 5 0.06
40 5 0.06
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (38 bp):
CGGGATTTAACTCGGATATAATACCAGCACGAAGCCTG
Found at i:54202192 original size:38 final size:38
Alignment explanation
Indices: 54202073--54202201 Score: 152
Period size: 38 Copynumber: 3.4 Consensus size: 38
54202063 TTTAAGCTCA
** *
54202073 GATATAATACCAGCAATAGGCCTGCGGGATTTAA-CTCG
1 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCT-G
* * *
54202111 GATATAATACTAGCACGAAACCTGCGGGATTTAACCCG
1 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCTG
*
54202149 GATATAATACCAGCACGAAGCCTGTGGGATTTAACCTG
1 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCTG
* * *
54202187 AATATATTTCCAGCA
1 GATATAATACCAGCA
54202202 TATAGCTTGC
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
38 76 0.99
39 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (38 bp):
GATATAATACCAGCACGAAGCCTGCGGGATTTAACCTG
Found at i:54207498 original size:38 final size:38
Alignment explanation
Indices: 54207385--54207517 Score: 131
Period size: 38 Copynumber: 3.4 Consensus size: 38
54207375 GAATCTAGTC
* *
54207385 ACCAGCACAAAACCTGCGGGACTTTAAGCTCAGATATAAT
1 ACCAGCACAAAGCCTGCGGGA-TTTAACCT-AGATATAAT
* * **
54207425 ACCAGCACTAGGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACAAAGCCTGCGGGATTTAACCTAGATATAAT
* * * *
54207463 ACTAGCACGAAGCCTGCGGGATTTAACCTAAATATATT
1 ACCAGCACAAAGCCTGCGGGATTTAACCTAGATATAAT
* * *
54207501 TCCAGCATATAGCCTGC
1 ACCAGCACAAAGCCTGC
54207518 AGGTTTTTAA
Statistics
Matches: 75, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
38 51 0.68
39 6 0.08
40 18 0.24
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.23
Consensus pattern (38 bp):
ACCAGCACAAAGCCTGCGGGATTTAACCTAGATATAAT
Found at i:54212509 original size:48 final size:48
Alignment explanation
Indices: 54212438--54212617 Score: 236
Period size: 48 Copynumber: 3.8 Consensus size: 48
54212428 CATTAGGATT
*
54212438 ATATGAGATCCCATGTAAAACCATGT-TCGGGACATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCT-GGGACATGGCATTGGCATCG
**
54212486 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTCACATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * * *
54212534 ATATGAGATCCCATGTAAGACCATATCTAGGATATGACATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* ** **
54212582 ATTTGTTATTTCATGTAAGACCATGTCTGGGACATG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATG
54212618 CCATCGATAT
Statistics
Matches: 114, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
48 113 0.99
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (48 bp):
ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
Found at i:54217397 original size:23 final size:23
Alignment explanation
Indices: 54217367--54217411 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
54217357 TAATATGACT
*
54217367 AAGTCCTTAATAAGAATGTTTTC
1 AAGTCCTTAATAAGAATATTTTC
*
54217390 AAGTCCTTAATGAGAATATTTT
1 AAGTCCTTAATAAGAATATTTT
54217412 TAAGACAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (23 bp):
AAGTCCTTAATAAGAATATTTTC
Found at i:54220074 original size:40 final size:39
Alignment explanation
Indices: 54220019--54220110 Score: 125
Period size: 40 Copynumber: 2.3 Consensus size: 39
54220009 GATAAACGGA
54220019 CTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGG
1 CTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCC-GG
* *
54220059 CTAAGA-CTCGAAGGCATTTGTGCGAGTTGTTATATCCGG
1 CTAAGATC-CGAAGGCATTCGTGCGAGTTGCTATATCCGG
54220098 CTAA-ATCCCGAAG
1 CTAAGAT-CCGAAG
54220111 ATACTTGGGT
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
38 1 0.02
39 12 0.26
40 34 0.72
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGG
Found at i:54220378 original size:22 final size:22
Alignment explanation
Indices: 54220338--54220379 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
54220328 GAATGTGCAT
*
54220338 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
54220360 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
54220380 TCAAAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:54227889 original size:40 final size:40
Alignment explanation
Indices: 54227829--54227925 Score: 128
Period size: 40 Copynumber: 2.5 Consensus size: 40
54227819 CGGATGATAA
*
54227829 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
* *
54227869 CCGGGCTAAGA-CTCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGATC-CGAAGGCATTCGTGCGAGTTGCTATAT
54227909 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGAT-CCGAAG
54227926 ATACTTGGGT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
38 1 0.02
39 12 0.24
40 38 0.75
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
Found at i:54228193 original size:22 final size:22
Alignment explanation
Indices: 54228153--54228194 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
54228143 GAATGTGCAT
*
54228153 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
54228175 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
54228195 TCAAAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:54233702 original size:59 final size:60
Alignment explanation
Indices: 54233581--54233716 Score: 152
Period size: 59 Copynumber: 2.3 Consensus size: 60
54233571 AACTATGTTA
* * * *
54233581 ATATGGGCGAGGCCCAATATATCTCGACTTGTAATAGGGCTGCGGCCTAGATTGATACTG
1 ATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTACGGCCCAGATTAATACTG
* * * *
54233641 ATATGCGCTAGGCCCAATATA-CTCGA-TACTGTAA-GGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATATCTCGACT--TGTAATAGGGCTACGGCCCAGATTAATACTG
54233700 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
54233717 GTTAACACTG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
58 1 0.02
59 32 0.50
60 31 0.48
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (60 bp):
ATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTACGGCCCAGATTAATACTG
Found at i:54236551 original size:15 final size:15
Alignment explanation
Indices: 54236533--54236561 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
54236523 ATATTTATAA
54236533 AATTATTATTATTAT
1 AATTATTATTATTAT
54236548 AATTATTATTATTA
1 AATTATTATTATTA
54236562 GATAGGGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:54238800 original size:60 final size:59
Alignment explanation
Indices: 54238724--54238860 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 59
54238714 AACTATGTTA
* * *
54238724 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTGCGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTG
* * *
54238784 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTG
54238844 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
54238861 GTTAACACTG
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
59 1 0.01
60 51 0.76
61 15 0.22
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTG
Found at i:54242478 original size:47 final size:47
Alignment explanation
Indices: 54242406--54242582 Score: 194
Period size: 48 Copynumber: 3.7 Consensus size: 47
54242396 GGTTATATAG
*
54242406 GATCCTATGCAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
1 GATCC-ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
* * *
54242454 GATCCATGTAAGACCATGTTTGGGACATAGCCTTGGCATCGATATGA
1 GATCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
* * * * *
54242501 GATCTCATGTAGGACCATAT-TAGGGATATGGCATTGGCATCAATATGT
1 GATC-CATGTAAGACCATGTCT-GGGACATGGCATTGGCATCGATATGA
* * * *
54242549 GATTTCATGTAAAACCAAGTCTGGTACATGGCAT
1 GA-TCCATGTAAGACCATGTCTGGGACATGGCAT
54242583 CGATATGAAA
Statistics
Matches: 107, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
47 43 0.40
48 62 0.58
49 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (47 bp):
GATCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
Found at i:54253202 original size:45 final size:45
Alignment explanation
Indices: 54253119--54253206 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
54253109 CTATGTGGTT
*
54253119 TGAACTCATTGAGTTATGCTCTGAGTTCATGACATATGTGACATC
1 TGAACTCATTGAGTTATGCTCTGAGTTCACGACATATGTGACATC
* * **
54253164 TGAACTCATTGAGTTGTAG-TCTGAGTTCGCGATGTATGTGACA
1 TGAACTCATTGAGTTAT-GCTCTGAGTTCACGACATATGTGACA
54253207 CATGTTTTGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
45 36 0.97
46 1 0.03
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (45 bp):
TGAACTCATTGAGTTATGCTCTGAGTTCACGACATATGTGACATC
Found at i:54253976 original size:170 final size:171
Alignment explanation
Indices: 54253693--54254033 Score: 612
Period size: 170 Copynumber: 2.0 Consensus size: 171
54253683 ATTTACTAAG
*
54253693 CTTTGAAGCTTACCCCCTTTTTTTCTTTCCAACCTCTCATAGGTTTATTCAGCTAGCTGGGGTTG
1 CTTTGAAGCTTACCCCCTTTTTTTCTTTCCAACCTCTCATAGGTTTATTCAGCTAGCTCGGGTTG
54253758 GAGATCGTCGAAGATTCTATCACACTATCAAGCTATCATGTTGGGTAAATGAACGCAAACCTTTG
66 GAGATCGTCGAAGATTCTATCACACTATCAAGCTATCATGTTGGGTAAATGAACGCAAACCTTTG
54253823 AATCTATGGCATGTATAGGAACTTAGTCATTTTGTATATGT
131 AATCTATGGCATGTATAGGAACTTAGTCATTTTGTATATGT
*
54253864 CTTTGAAGCTTACCCCC-TTTTTTCTTTCCCACCTCTCATAGGTTTATTCAGCTAGCTCGGGTTG
1 CTTTGAAGCTTACCCCCTTTTTTTCTTTCCAACCTCTCATAGGTTTATTCAGCTAGCTCGGGTTG
* *
54253928 GAGATCGTCGAAGATTTTATCACACTATCAAGCTATCATGTTGGGTAAATGAATGCAAACCTTTG
66 GAGATCGTCGAAGATTCTATCACACTATCAAGCTATCATGTTGGGTAAATGAACGCAAACCTTTG
* * *
54253993 AGTCTATGGCATGTATAGGGACTTAGTCATTTTGTGTATGT
131 AATCTATGGCATGTATAGGAACTTAGTCATTTTGTATATGT
54254034 GTCATTATGA
Statistics
Matches: 163, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
170 146 0.90
171 17 0.10
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (171 bp):
CTTTGAAGCTTACCCCCTTTTTTTCTTTCCAACCTCTCATAGGTTTATTCAGCTAGCTCGGGTTG
GAGATCGTCGAAGATTCTATCACACTATCAAGCTATCATGTTGGGTAAATGAACGCAAACCTTTG
AATCTATGGCATGTATAGGAACTTAGTCATTTTGTATATGT
Done.