Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 193 of 230
Found at i:58120700 original size:50 final size:50
Alignment explanation
Indices: 58120588--58120886 Score: 373
Period size: 50 Copynumber: 5.8 Consensus size: 50
58120578 ATTTGGGTAA
* * * *
58120588 AGAGATCCCATATAAGACCATGTCTAGGACATGACATTGGCATCCTTGAGATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ACG
*
58120644 ATAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* *
58120694 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * *
58120744 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * * * *
58120794 AGAGGTCCCCTGTAAGACCATGTCTGGGACATTGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
** *
58120844 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
58120887 TGTAATGATC
Statistics
Matches: 219, Mismatches: 23, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
50 143 0.65
51 34 0.16
53 3 0.01
55 2 0.01
56 37 0.17
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:58127773 original size:6 final size:6
Alignment explanation
Indices: 58127762--58127796 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
58127752 CCATCTGTTT
*
58127762 GATATA GATATA GATATA GATATA GATATA TATAT
1 GATATA GATATA GATATA GATATA GATATA GATAT
58127797 GTAAGTCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (6 bp):
GATATA
Found at i:58135092 original size:16 final size:16
Alignment explanation
Indices: 58135071--58135103 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
58135061 TTCGCTGTAT
58135071 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
58135087 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
58135103 T
1 T
58135104 AGCATAAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:58135262 original size:55 final size:56
Alignment explanation
Indices: 58135203--58135331 Score: 124
Period size: 55 Copynumber: 2.3 Consensus size: 56
58135193 AAGATTATTA
*
58135203 ATATAAATAATAAATAATT-TAAA-ATTATTATTATTAAATATAATTTAACAAAAAT-
1 ATATAAATAATAAATAATTCTAAATATAATTATTATTAAAT-TAATTT-ACAAAAATC
* * * *
58135258 ATATAATTTAAT-AA-AATTCTAAATATAATTATTCTTATATTAATTTACTAAAATC
1 ATATAA-ATAATAAATAATTCTAAATATAATTATTATTAAATTAATTTACAAAAATC
*
58135313 ATAATATATAATAATATAA
1 AT-ATAAATAATAA-ATAA
58135332 AAATATTTAA
Statistics
Matches: 59, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
54 11 0.19
55 24 0.41
56 21 0.36
57 1 0.02
58 2 0.03
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (56 bp):
ATATAAATAATAAATAATTCTAAATATAATTATTATTAAATTAATTTACAAAAATC
Found at i:58139441 original size:24 final size:24
Alignment explanation
Indices: 58139391--58139442 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
58139381 TTTCTAGAAG
* *
58139391 ATTTAGTATTTATTAGTATATTAT
1 ATTTAGCATTTATTAGCATATTAT
58139415 ATTTAGCATTTATTAGCATACTT-T
1 ATTTAGCATTTATTAGCATA-TTAT
58139439 ATTT
1 ATTT
58139443 GGCCTACGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.56
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATATTAT
Found at i:58141079 original size:24 final size:24
Alignment explanation
Indices: 58141051--58141099 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
58141041 CTAGAAGATC
*
58141051 TAGTATTTATTAGTATAATATATT
1 TAGTATTTATTAGCATAATATATT
*
58141075 TAGTATTTATTAGCATAATTTATT
1 TAGTATTTATTAGCATAATATATT
58141099 T
1 T
58141100 TACCTATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (24 bp):
TAGTATTTATTAGCATAATATATT
Found at i:58141595 original size:20 final size:20
Alignment explanation
Indices: 58141570--58141609 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
58141560 TGTAAAATGA
*
58141570 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
58141590 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
58141610 AGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:58141598 original size:34 final size:35
Alignment explanation
Indices: 58141555--58141621 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
58141545 CAGTAAAATA
* *
58141555 TTTTCTGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCTGTAAAATGATTTACTAGAAAATATTTTAC
58141589 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
58141622 CTGCTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 18 0.60
35 12 0.40
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (35 bp):
TTTTCTGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:58148089 original size:69 final size:69
Alignment explanation
Indices: 58147974--58148129 Score: 278
Period size: 69 Copynumber: 2.3 Consensus size: 69
58147964 CTGCAACCAG
* *
58147974 AATTCAGAGTCATTTCCGTGGTTGGCAGTTAAGAAGGAATTTTATGAAGAAGAAGCAAGCAATAA
1 AATTCAGAGTCATTTCCGTGGTTGGCAGTTAAGAAGGAATTGTATGAAGAAAAAGCAAGCAATAA
58148039 TTAA
66 TTAA
58148043 AATTCAGAGTCATTTCCGTGGTTGGCAGTTAAGAAGGAATTGTATGAAGAAAAAGCAAGCAATAA
1 AATTCAGAGTCATTTCCGTGGTTGGCAGTTAAGAAGGAATTGTATGAAGAAAAAGCAAGCAATAA
58148108 TTAA
66 TTAA
58148112 AATTCAGAG-CAATTTCCG
1 AATTCAGAGTC-ATTTCCG
58148130 ACTGCAAAAA
Statistics
Matches: 84, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
68 1 0.01
69 83 0.99
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (69 bp):
AATTCAGAGTCATTTCCGTGGTTGGCAGTTAAGAAGGAATTGTATGAAGAAAAAGCAAGCAATAA
TTAA
Found at i:58151539 original size:18 final size:20
Alignment explanation
Indices: 58151506--58151543 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
58151496 GACGGGATGC
58151506 AGGGAAAGCATCAACTTTGA
1 AGGGAAAGCATCAACTTTGA
58151526 AGGG-AAGC-TCAACTTTGA
1 AGGGAAAGCATCAACTTTGA
58151544 GTAGGGAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 4 0.22
20 4 0.22
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (20 bp):
AGGGAAAGCATCAACTTTGA
Found at i:58155696 original size:11 final size:11
Alignment explanation
Indices: 58155668--58155757 Score: 68
Period size: 11 Copynumber: 8.6 Consensus size: 11
58155658 TAAATATATT
*
58155668 TATTTTTTAAA
1 TATTTTTAAAA
58155679 -A-TTTTAAAA
1 TATTTTTAAAA
58155688 TATTTTTAAAA
1 TATTTTTAAAA
*
58155699 TACTTTTAAAA
1 TATTTTTAAAA
* *
58155710 TACTTTTT-TAT
1 TA-TTTTTAAAA
58155721 TATTTTT----
1 TATTTTTAAAA
*
58155728 TAATTTTAAAA
1 TATTTTTAAAA
58155739 TATTTTTAAAA
1 TATTTTTAAAA
58155750 TACTTTTT
1 TA-TTTTT
58155758 TAATTTTTAA
Statistics
Matches: 64, Mismatches: 7, Indels: 15
0.74 0.08 0.17
Matches are distributed among these distances:
7 6 0.09
9 7 0.11
10 7 0.11
11 35 0.55
12 9 0.14
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:58155777 original size:20 final size:20
Alignment explanation
Indices: 58155740--58155778 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
58155730 ATTTTAAAAT
**
58155740 ATTTTTAAAATACTTTTTTA
1 ATTTTTAAAATAAATTTTTA
58155760 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
58155779 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTTTAAAATAAATTTTTA
Found at i:58155777 original size:51 final size:51
Alignment explanation
Indices: 58155669--58155778 Score: 125
Period size: 51 Copynumber: 2.1 Consensus size: 51
58155659 AAATATATTT
** *
58155669 ATTTTTTAAAATTTTAAAATATTTTTAAAATACTTTTAAAATACTTTTTTATT
1 ATTTTTT-AAATTTTAAAATATTTTTAAAATACTTTTAAAATA-TTTTAAATA
**
58155722 ATTTTTT-AATTTTAAAATATTTTTAAAATACTTTTTTAAT-TTTTAAAATA
1 ATTTTTTAAATTTTAAAATATTTTTAAAATACTTTTAAAATATTTT-AAATA
*
58155772 AATTTTT
1 ATTTTTT
58155779 GGTATTTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
49 4 0.08
50 8 0.16
51 31 0.62
53 7 0.14
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (51 bp):
ATTTTTTAAATTTTAAAATATTTTTAAAATACTTTTAAAATATTTTAAATA
Found at i:58155785 original size:22 final size:20
Alignment explanation
Indices: 58155739--58155796 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 20
58155729 AATTTTAAAA
*
58155739 TATTTTTAAAAT-ACTTTTT
1 TATTTTTAAAATAAATTTTT
58155758 TAATTTTTAAAATAAATTTTT
1 T-ATTTTTAAAATAAATTTTT
58155779 GGTATTTATTAAAA-AAAT
1 --TATTT-TTAAAATAAAT
58155797 GGGCCGGGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 1 0.03
20 11 0.33
21 6 0.18
22 8 0.24
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (20 bp):
TATTTTTAAAATAAATTTTT
Found at i:58156316 original size:40 final size:39
Alignment explanation
Indices: 58156269--58156403 Score: 139
Period size: 40 Copynumber: 3.4 Consensus size: 39
58156259 CTTTTAGACA
* *
58156269 AAAAACGCCACTAAAAATCAAGCATTAGCTGCGCTTTTAT
1 AAAAACGCCGCTAAAAATCAAGCATTAGCAGCGCTTTT-T
** * *
58156309 AAAAACGCCGCTAAAGGTCGAGCATTAGCGGCGCTTTTT
1 AAAAACGCCGCTAAAAATCAAGCATTAGCAGCGCTTTTT
* * * *
58156348 GGAAAGCGCCGCTAAAAAT-AGGCATTAGCAGCGTTTTTT
1 -AAAAACGCCGCTAAAAATCAAGCATTAGCAGCGCTTTTT
58156387 AAAAAGCGCCGC-AAAAA
1 AAAAA-CGCCGCTAAAAA
58156404 GCCTAAGCCC
Statistics
Matches: 78, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
38 8 0.10
39 23 0.29
40 47 0.60
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (39 bp):
AAAAACGCCGCTAAAAATCAAGCATTAGCAGCGCTTTTT
Found at i:58156499 original size:41 final size:40
Alignment explanation
Indices: 58156442--58156558 Score: 128
Period size: 41 Copynumber: 2.9 Consensus size: 40
58156432 GTTTTTGGGG
* ** * **
58156442 CCTTTAGCGGCGTTTTTGAAAAAGCGGTGCTAATGCTCTTT
1 CCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATACTC-GA
58156483 CCTTTAGCGGCATTTTT-AAAGAAGCGCCGCTAATACTCGA
1 CCTTTAGCGGCATTTTTGAAA-AAGCGCCGCTAATACTCGA
* *
58156523 CCTTTAGAGGCGTTTTTTGAAAAAGCGCCGCTAATA
1 CCTTTAGCGGC-ATTTTTGAAAAAGCGCCGCTAATA
58156559 ATAATACAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
40 13 0.20
41 49 0.75
42 3 0.05
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (40 bp):
CCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATACTCGA
Found at i:58157588 original size:32 final size:32
Alignment explanation
Indices: 58157534--58157604 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
58157524 TTAAATAATA
*
58157534 TTTAGGGGTTAGAGATTTAGGGTCAGGTTAAAG
1 TTTA-GGGTTAGAGATTCAGGGTCAGGTTAAAG
**
58157567 TTTAGGGTTA-AGGATTCAGGGTCAGGTTAGGG
1 TTTAGGGTTAGA-GATTCAGGGTCAGGTTAAAG
58157599 TTTAGG
1 TTTAGG
58157605 ATTTAGATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 1 0.03
32 29 0.85
33 4 0.12
ACGTcount: A:0.24, C:0.04, G:0.38, T:0.34
Consensus pattern (32 bp):
TTTAGGGTTAGAGATTCAGGGTCAGGTTAAAG
Found at i:58157721 original size:110 final size:111
Alignment explanation
Indices: 58157490--58157752 Score: 300
Period size: 110 Copynumber: 2.3 Consensus size: 111
58157480 GTCAGGTTAT
* * *
58157490 GGTTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAATATTTAGGGGTTAGAGATTTAGG
1 GGTTTAGATTAATTAGTGT-TTTTAATTTATATATTAAACAAGATTTAGGGGTTAGAGAGTTA-G
* *
58157555 GTCAGGTTAAAGTTTAGGGTTAAGGATTCAGGGTCAGGTTAGGGTTTA
64 ATCAGGTTAAAGTTTAGGGTTAAGGATTCAGGGTCAGGTTAGGATTTA
* * * *
58157603 GGATTTAGATTAATTAGTGTTTTTAATTTATATATTAAACAAGGTTTATGGGTTTG-GGGTTA-A
1 GG-TTTAGATTAATTAGTGTTTTTAATTTATATATTAAACAAGATTTAGGGGTTAGAGAGTTAGA
** * *
58157666 T-A-GTTAGTGATTTAGGGTTTAGAGATTCAGGGTCGGGTTAGGATTTAA
65 TCAGGTTAAAG-TTTAGGGTTAAG-GATTCAGGGTCAGGTTAGGATTT-A
* *
58157714 GGTTTAGATTAATTAGTATTTTTTAATTTATATACTAAA
1 GGTTTAGATTAATTAGT-GTTTTTAATTTATATATTAAA
58157753 TAAGTTCTTA
Statistics
Matches: 130, Mismatches: 15, Indels: 12
0.83 0.10 0.08
Matches are distributed among these distances:
108 5 0.04
109 12 0.09
110 37 0.28
111 22 0.17
112 4 0.03
113 33 0.25
114 17 0.13
ACGTcount: A:0.30, C:0.03, G:0.25, T:0.43
Consensus pattern (111 bp):
GGTTTAGATTAATTAGTGTTTTTAATTTATATATTAAACAAGATTTAGGGGTTAGAGAGTTAGAT
CAGGTTAAAGTTTAGGGTTAAGGATTCAGGGTCAGGTTAGGATTTA
Found at i:58158333 original size:16 final size:15
Alignment explanation
Indices: 58158308--58158342 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
58158298 CGCCATTTAT
*
58158308 AAATTTTCCCCCCTG
1 AAATTTTCCCCCCTA
58158323 AAATATTTCCCCCCTA
1 AAAT-TTTCCCCCCTA
58158339 AAAT
1 AAAT
58158343 CCCTAATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.31, C:0.34, G:0.03, T:0.31
Consensus pattern (15 bp):
AAATTTTCCCCCCTA
Found at i:58161513 original size:23 final size:22
Alignment explanation
Indices: 58161483--58161526 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
58161473 CCCGTATAAT
*
58161483 GAAATTTATTTATTTATTGTTAG
1 GAAATTTAATTATTTA-TGTTAG
*
58161506 GAAATTTAATTGTTTATGTTA
1 GAAATTTAATTATTTATGTTA
58161527 ATTTATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.55
Consensus pattern (22 bp):
GAAATTTAATTATTTATGTTAG
Found at i:58161557 original size:27 final size:27
Alignment explanation
Indices: 58161526--58161593 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 27
58161516 TGTTTATGTT
* *
58161526 AATTTATTTATTATAGGTGAATGTTGA
1 AATTTATTTACTATAAGTGAATGTTGA
* *
58161553 AATTTA-TTACTATAATTTAATGTTGA
1 AATTTATTTACTATAAGTGAATGTTGA
*
58161579 AACTTA-TTACTATAA
1 AATTTATTTACTATAA
58161594 TTTATTTTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 30 0.83
27 6 0.17
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.47
Consensus pattern (27 bp):
AATTTATTTACTATAAGTGAATGTTGA
Found at i:58161574 original size:26 final size:26
Alignment explanation
Indices: 58161545--58161597 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
58161535 ATTATAGGTG
*
58161545 AATGTTGAAATTTATTACTATAATTT
1 AATGTTGAAACTTATTACTATAATTT
58161571 AATGTTGAAACTTATTACTATAATTT
1 AATGTTGAAACTTATTACTATAATTT
58161597 A
1 A
58161598 TTTTACTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.47
Consensus pattern (26 bp):
AATGTTGAAACTTATTACTATAATTT
Found at i:58161764 original size:43 final size:43
Alignment explanation
Indices: 58161701--58161902 Score: 282
Period size: 42 Copynumber: 4.7 Consensus size: 43
58161691 ATGGCACTTT
*
58161701 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * *
58161744 TAGCGGCGTTTGTGAGAAAAGTGCCGCTAAAGTTC-CGATCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTA
* *
58161786 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTA
* *
58161829 TAGCGGCGTTTTTG-GGAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * * *
58161871 TAGTGGCGTTTGTAAAAAAAGCGTCGCTAAAG
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAG
58161903 TTAGCGACGT
Statistics
Matches: 140, Mismatches: 17, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
42 75 0.54
43 65 0.46
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTA
Found at i:58161869 original size:85 final size:85
Alignment explanation
Indices: 58161701--58161902 Score: 289
Period size: 85 Copynumber: 2.4 Consensus size: 85
58161691 ATGGCACTTT
* *
58161701 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAGAAAAGT
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGAGAAAAGC
*
58161766 GCCGCTAAAGTTCCGATCTA
66 GCCGCTAAAGGTCCGATCTA
** * *
58161786 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTTTG-GGAAAGC
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGAGAAAAGC
*
58161850 GCCGCTAAAGGTCTTGATCTA
66 GCCGCTAAAGGTC-CGATCTA
* * *
58161871 TAGTGGCGTTTGTAAAAAAAGCGTCGCTAAAG
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAG
58161903 TTAGCGACGT
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
84 17 0.17
85 86 0.83
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (85 bp):
TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGAGAAAAGC
GCCGCTAAAGGTCCGATCTA
Found at i:58170463 original size:39 final size:40
Alignment explanation
Indices: 58170420--58170504 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
58170410 CCACATCAAG
* * *
58170420 AAAAAAAT-CACATAAAAATGTTTAAAAATATAAAAATAT
1 AAAAAAATCCACACAAAAATATTTAAAAATAGAAAAATAT
* * * *
58170459 AAAAAAATCCACCCCAAAATATTTAAAATTAGAAAATTAT
1 AAAAAAATCCACACAAAAATATTTAAAAATAGAAAAATAT
58170499 AAAAAA
1 AAAAAA
58170505 TAAAAAATCA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 8 0.21
40 30 0.79
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.24
Consensus pattern (40 bp):
AAAAAAATCCACACAAAAATATTTAAAAATAGAAAAATAT
Found at i:58172769 original size:21 final size:21
Alignment explanation
Indices: 58172745--58172877 Score: 113
Period size: 21 Copynumber: 6.3 Consensus size: 21
58172735 ATAAGGGTTG
*
58172745 AACGGAAGCTCGTAAGAGCTA
1 AACGGAAGCTCATAAGAGCTA
* * * *
58172766 AACGGAAACCCATAAGGGTTA
1 AACGGAAGCTCATAAGAGCTA
* * *
58172787 AACAGAAGCTCAAAAGAGCTG
1 AACGGAAGCTCATAAGAGCTA
* * *
58172808 AACGGAAGCTCATTAGGGTTA
1 AACGGAAGCTCATAAGAGCTA
* * * *
58172829 AATGGAAACTCATATGAGTTA
1 AACGGAAGCTCATAAGAGCTA
* *
58172850 AACAGAAGCTCGTAAGAGCTA
1 AACGGAAGCTCATAAGAGCTA
58172871 AACGGAA
1 AACGGAA
58172878 AGTAAACACA
Statistics
Matches: 82, Mismatches: 30, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 82 1.00
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.17
Consensus pattern (21 bp):
AACGGAAGCTCATAAGAGCTA
Found at i:58172795 original size:42 final size:42
Alignment explanation
Indices: 58172728--58172830 Score: 134
Period size: 42 Copynumber: 2.5 Consensus size: 42
58172718 AGTGTTAACA
* * **
58172728 GAAACCCATAAGGGTTGAACGGAAGCTCGTAAGAGCTAAACG
1 GAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTAAACG
*
58172770 GAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTGAACG
1 GAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTAAACG
* * *
58172812 GAAGCTCATTAGGGTTAAA
1 GAAACCCATAAGGGTTAAA
58172831 TGGAAACTCA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.16
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTAAACG
Found at i:58172814 original size:63 final size:63
Alignment explanation
Indices: 58172708--58172877 Score: 180
Period size: 63 Copynumber: 2.7 Consensus size: 63
58172698 AGGCTGAATT
* * * * * *
58172708 GAAACACATAAGTGTT-AACAGAAACCCATAAGGGTTGAACGGAAGCTCGTAAGAGCTAAACG
1 GAAACACATAAGAGTTAAACAGAAGCTCATAAGAGCTGAACGGAAGCTCATAAGAGCTAAACG
* * * * * * *
58172770 GAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTGAACGGAAGCTCATTAGGGTTAAATG
1 GAAACACATAAGAGTTAAACAGAAGCTCATAAGAGCTGAACGGAAGCTCATAAGAGCTAAACG
* * * *
58172833 GAAACTCATATGAGTTAAACAGAAGCTCGTAAGAGCTAAACGGAA
1 GAAACACATAAGAGTTAAACAGAAGCTCATAAGAGCTGAACGGAA
58172878 AGTAAACACA
Statistics
Matches: 89, Mismatches: 18, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
62 14 0.16
63 75 0.84
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.17
Consensus pattern (63 bp):
GAAACACATAAGAGTTAAACAGAAGCTCATAAGAGCTGAACGGAAGCTCATAAGAGCTAAACG
Found at i:58180008 original size:19 final size:19
Alignment explanation
Indices: 58179984--58180020 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
58179974 GTATTTTTTA
58179984 CTTAAAAA-ATTCAAAATTC
1 CTTAAAAATATT-AAAATTC
58180003 CTTAAAAATATTAAAATT
1 CTTAAAAATATTAAAATT
58180021 TTCATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (19 bp):
CTTAAAAATATTAAAATTC
Found at i:58180715 original size:42 final size:43
Alignment explanation
Indices: 58180647--58180738 Score: 168
Period size: 42 Copynumber: 2.2 Consensus size: 43
58180637 ATAAAATGTT
58180647 AGAATTTTATGAAAAATTTTAAAAATTTATGTATTGTTTTGAG
1 AGAATTTTATGAAAAATTTTAAAAATTTATGTATTGTTTTGAG
58180690 AGAATTTTATG-AAAATTTTAAAAATTTATGTATTGTTTTGAG
1 AGAATTTTATGAAAAATTTTAAAAATTTATGTATTGTTTTGAG
*
58180732 AAAATTT
1 AGAATTT
58180739 AGGGTTTTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 37 0.77
43 11 0.23
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (43 bp):
AGAATTTTATGAAAAATTTTAAAAATTTATGTATTGTTTTGAG
Found at i:58180833 original size:21 final size:21
Alignment explanation
Indices: 58180807--58180852 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
58180797 TTTCTTAAGT
58180807 AAAAAATACCATAAAATTCTAA
1 AAAAAAT-CCATAAAATTCTAA
* *
58180829 AAAAAATTCATAATATTCTAA
1 AAAAAATCCATAAAATTCTAA
58180850 AAA
1 AAA
58180853 CTTTAAAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAAATCCATAAAATTCTAA
Found at i:58192272 original size:27 final size:27
Alignment explanation
Indices: 58192234--58192296 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
58192224 ATTGCAAAAC
* *
58192234 AGAAAAAGAAAGAAAAGCAATCG-GAAA
1 AGAAAAAAAAAG-AAACCAATCGAGAAA
*
58192261 AGAAAAAAAAAGAACCCAATCGAGAAA
1 AGAAAAAAAAAGAAACCAATCGAGAAA
*
58192288 AGGAAAAAA
1 AGAAAAAAA
58192297 GAAAACCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 8 0.26
27 23 0.74
ACGTcount: A:0.68, C:0.10, G:0.19, T:0.03
Consensus pattern (27 bp):
AGAAAAAAAAAGAAACCAATCGAGAAA
Found at i:58192303 original size:27 final size:25
Alignment explanation
Indices: 58192242--58192303 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 25
58192232 ACAGAAAAAG
*
58192242 AAAGAAAA-GCAATCGGAAAAGAAA
1 AAAGAAAACCCAATCGGAAAAGAAA
*
58192266 AAAAAAGAACCCAATCGAGAAAAGGAAA
1 AAAGAA-AACCCAATCG-GAAAA-GAAA
58192294 AAAGAAAACC
1 AAAGAAAACC
58192304 TTTCTTGTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 5 0.16
25 2 0.06
26 6 0.19
27 9 0.29
28 9 0.29
ACGTcount: A:0.66, C:0.13, G:0.18, T:0.03
Consensus pattern (25 bp):
AAAGAAAACCCAATCGGAAAAGAAA
Found at i:58193798 original size:31 final size:31
Alignment explanation
Indices: 58193763--58193827 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
58193753 TCGAACACAT
* *
58193763 GGCTGTGTGGACGAATTGTGTAACAGGTTGA
1 GGCTGTGTGGACAAACTGTGTAACAGGTTGA
*
58193794 GGCTGTGTGGACAAACTGTGTAACTGGTTGA
1 GGCTGTGTGGACAAACTGTGTAACAGGTTGA
58193825 GGC
1 GGC
58193828 CGTGAGATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.12, G:0.38, T:0.28
Consensus pattern (31 bp):
GGCTGTGTGGACAAACTGTGTAACAGGTTGA
Found at i:58196877 original size:9 final size:9
Alignment explanation
Indices: 58196860--58196896 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
58196850 TGAGTTTTCG
58196860 AATTCGAAT
1 AATTCGAAT
*
58196869 AACTCGAAT
1 AATTCGAAT
58196878 AATTCGAAT
1 AATTCGAAT
58196887 AATTCGAAT
1 AATTCGAAT
58196896 A
1 A
58196897 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:58197151 original size:30 final size:31
Alignment explanation
Indices: 58197115--58197175 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
58197105 AAACCTTTTA
*
58197115 TTTTCCCCCAAAATTTTTACTCCC-TCCCAT
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAT
* *
58197145 TTTTCCCCTAAAACTTTTATTCCCTTCCCAT
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAT
58197176 CCCACCTCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAT
Found at i:58203065 original size:15 final size:14
Alignment explanation
Indices: 58203045--58203075 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
58203035 AAGTACAATC
58203045 ATCCAAAAACTGAAA
1 ATCCAAAAACT-AAA
58203060 ATCCAAAAACTAAA
1 ATCCAAAAACTAAA
58203074 AT
1 AT
58203076 AATAGTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.61, C:0.19, G:0.03, T:0.16
Consensus pattern (14 bp):
ATCCAAAAACTAAA
Found at i:58203182 original size:33 final size:33
Alignment explanation
Indices: 58203144--58203210 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
58203134 TTACAATGTC
*
58203144 ACAAATATACTACAAATGTGACAAAAGCAACTA
1 ACAAATATACTACAAATGTGACAAAAACAACTA
58203177 ACAAATATACTACAAATGTGACAAAAACAACTA
1 ACAAATATACTACAAATGTGACAAAAACAACTA
58203210 A
1 A
58203211 GCGTCACATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.57, C:0.18, G:0.07, T:0.18
Consensus pattern (33 bp):
ACAAATATACTACAAATGTGACAAAAACAACTA
Found at i:58207611 original size:100 final size:102
Alignment explanation
Indices: 58207498--58207733 Score: 300
Period size: 101 Copynumber: 2.3 Consensus size: 102
58207488 TCATTTGATA
* *
58207498 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGTTA-ACGTAGTAGCC
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGG-TACACATAGTAGCC
* ** *
58207560 TTCACATAGTACTACACACGTGATCAAGTTTTA-CGGTT
64 TTCACATAGTACTACACACGTGACCAACATTTATCGATT
* * *
58207598 CACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTTTGGTACACATTGTAGCCTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTAGCCTT
* * *
58207663 CACTTAGTACTACACATGTGACCATCATTTATCGATT
66 CACATAGTACTACACACGTGACCAACATTTATCGATT
* *
58207700 CACGTAGTAGCCTTCACACAGTACTACATACGTG
1 CACGTAGTAGCCTTCACATAGTACTACACACGTG
58207734 TTCATCGATA
Statistics
Matches: 117, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
100 37 0.32
101 41 0.35
102 39 0.33
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (102 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTAGCCTT
CACATAGTACTACACACGTGACCAACATTTATCGATT
Found at i:58207680 original size:51 final size:50
Alignment explanation
Indices: 58207496--58207733 Score: 282
Period size: 50 Copynumber: 4.7 Consensus size: 50
58207486 TATCATTTGA
*
58207496 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGG
*
58207546 TTA-ACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGG
1 -TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGG
* * *
58207596 TTCACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTT-TGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAG-TTTTACGG
* * * * *** *
58207647 TACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTA-CGG
* * *
58207698 TTCACGTAGTAGCCTTCACACAGTACTACATACGTG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTG
58207734 TTCATCGATA
Statistics
Matches: 162, Mismatches: 20, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
49 4 0.02
50 82 0.51
51 72 0.44
52 4 0.02
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (50 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGG
Found at i:58232503 original size:19 final size:20
Alignment explanation
Indices: 58232481--58232518 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
58232471 TCTTGTATTG
*
58232481 ATACTTTT-TTAAGGTATCA
1 ATACTTTTCTTAAGATATCA
58232500 ATACTTTTCTTAAGATATC
1 ATACTTTTCTTAAGATATC
58232519 GATATATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (20 bp):
ATACTTTTCTTAAGATATCA
Found at i:58234548 original size:28 final size:29
Alignment explanation
Indices: 58234503--58234563 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
58234493 ATTTATTTGT
*
58234503 TTAAGGTTTAGGGATTTTAAAA-AATAAA
1 TTAAGGTTTAGGAATTTTAAAATAATAAA
*
58234531 TTAAGGTTTA-GAATTTTTAAAATAATTAA
1 TTAAGGTTTAGGAA-TTTTAAAATAATAAA
58234560 TTAA
1 TTAA
58234564 ATTAGGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 2 0.07
28 18 0.62
29 9 0.31
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (29 bp):
TTAAGGTTTAGGAATTTTAAAATAATAAA
Found at i:58234582 original size:33 final size:32
Alignment explanation
Indices: 58234527--58234645 Score: 123
Period size: 33 Copynumber: 3.6 Consensus size: 32
58234517 TTTTAAAAAA
**
58234527 TAAATTAAGGTTTAGAATTTTTAAAATAATTAAT
1 TAAATT-AGGTTTAG-GGTTTTAAAATAATTAAT
*
58234561 TAAATTAGGTTTTAGGGTTTT-AAGTAAATTAAT
1 TAAATTAGG-TTTAGGGTTTTAAAAT-AATTAAT
* * *
58234594 TAAATTAAAGTTTAGAGTTTTAAAAAAATTAAT
1 TAAATT-AGGTTTAGGGTTTTAAAATAATTAAT
58234627 TAAATTAGGGTTTAGGGTT
1 TAAATTA-GGTTTAGGGTT
58234646 GAGTGTTGAA
Statistics
Matches: 71, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
32 4 0.06
33 52 0.73
34 15 0.21
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.43
Consensus pattern (32 bp):
TAAATTAGGTTTAGGGTTTTAAAATAATTAAT
Found at i:58234662 original size:67 final size:66
Alignment explanation
Indices: 58234520--58234645 Score: 175
Period size: 66 Copynumber: 1.9 Consensus size: 66
58234510 TTAGGGATTT
* * * * *
58234520 TAAAAAA-TAAATTAAGGTTTAGAATTTTTAAAATAATTAATTAAATTAGGTTTTAGGGTTTTAA
1 TAAAAAATTAAATTAAAGTTTAGAAGTTTTAAAAAAATTAATTAAATTAGGGTTTAGGGTTTGAA
58234584 G
66 G
*
58234585 TAAATTAATTAAATTAAAGTTTAG-AGTTTTAAAAAAATTAATTAAATTAGGGTTTAGGGTT
1 TAAA-AAATTAAATTAAAGTTTAGAAGTTTTAAAAAAATTAATTAAATTAGGGTTTAGGGTT
58234646 GAGTGTTGAA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
65 4 0.07
66 36 0.67
67 14 0.26
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.41
Consensus pattern (66 bp):
TAAAAAATTAAATTAAAGTTTAGAAGTTTTAAAAAAATTAATTAAATTAGGGTTTAGGGTTTGAA
G
Found at i:58234951 original size:125 final size:126
Alignment explanation
Indices: 58234687--58235198 Score: 570
Period size: 117 Copynumber: 4.2 Consensus size: 126
58234677 ATTTTGTTTC
*** *
58234687 CTTTTTCTACAGTAGTTTCTGAAATTTTAATTTTGAGAAGACGGTTCTG-AAAAATAGTGACAAA
1 CTTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGATAAA
* * * * *
58234751 AACGCTTCAAGCAAG-ATGCACTGTCAACAAAAGTACTGAAAAAAGCTCCTACGTAGACACT
66 AACGCTTCAAGC-AGTATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACATGGACGCT
* * * *
58234812 CTTTTTCTACAGTAGTTTCT-AAAAAATAATTTTGAGAAGGCAGTTTTGAAAAAATAATG-TAAA
1 CTTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGATAAA
* * * * * * ** *
58234875 AATGCTTCAATCAGTATGCACTCTCAGCAGAATTACTGACAAAAAACTCCCATGTGGATGCT
66 AACGCTTCAAGCAGTATGCACTGTCAACAAAATTACTGA-AAAAAGCTCCCACATGGACGCT
* * *
58234937 CTTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAAAAGACGGTTCTGAAAAAATAGTG-TCAA
1 CTTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGAT-AA
* *
58235001 AAACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAATCTCCCACATGGACGCT
65 AAACGCTTCAAGCAGTATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACATGGACGCT
* * * *
58235063 C--TTT-T----T--TTCCTGGAAAAATAATTTTGAGAATACGGTTTTGAAAAAATAGTGCA-AA
1 CTTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTG-ATAA
* * *
58235118 AAATGCTTCAAGCAGTATGCACTGTCACCAAAATTACTGAAAAAAGCTCCCACATGGACTCT
65 AAACGCTTCAAGCAGTATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACATGGACGCT
58235180 CTTTTTCTACAGTA-TTTCT
1 CTTTTTCTACAGTAGTTTCT
58235199 TGCTTGGCCT
Statistics
Matches: 325, Mismatches: 47, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
117 101 0.31
119 4 0.01
120 1 0.00
123 3 0.01
124 59 0.18
125 67 0.21
126 54 0.17
127 36 0.11
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (126 bp):
CTTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGATAAA
AACGCTTCAAGCAGTATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACATGGACGCT
Found at i:58247206 original size:41 final size:41
Alignment explanation
Indices: 58247143--58247257 Score: 153
Period size: 41 Copynumber: 2.8 Consensus size: 41
58247133 AGGCTTTAAT
*
58247143 GGCGTTTTTAAAAAGCGCCGCTAATGCTCAGGGT-TTTAGC
1 GGCGTTTTTAAAAAGCGTCGCTAATGCTCAGGGTCTTTAGC
* *
58247183 GGCGTTTTTAGAAAAGCATCGCTAATGATC-GGGTCTTTAGC
1 GGCGTTTTTA-AAAAGCGTCGCTAATGCTCAGGGTCTTTAGC
* *
58247224 GGCGTTTTTAATGAAGCGTCGCTAATGCTTAGGG
1 GGCGTTTTTAA-AAAGCGTCGCTAATGCTCAGGG
58247258 CAATAGTGGC
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
40 15 0.23
41 46 0.72
42 3 0.05
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (41 bp):
GGCGTTTTTAAAAAGCGTCGCTAATGCTCAGGGTCTTTAGC
Found at i:58252279 original size:43 final size:43
Alignment explanation
Indices: 58252141--58252452 Score: 423
Period size: 43 Copynumber: 7.3 Consensus size: 43
58252131 AGATTATGTT
* ** * *
58252141 TTTAGCGGCGTTTTTGCTAGAAGCGCCGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * * ** * *
58252183 TTTAGTGGCATTTTTGATAAAAGTGCCGCTAAAGGTCATGGT-
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
58252225 TTATAGCGGCGTTTGTGGGAAAACCGCCGCTAAAGGTCTTGGTC
1 TT-TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
58252269 TTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
58252312 TTTAGTGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
58252355 TTTAGCGGCGTTTGTGGG-AAAGCGCTGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
58252397 TTTAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
58252440 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
58252453 TTTCTAAAAA
Statistics
Matches: 243, Mismatches: 23, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
42 74 0.30
43 167 0.69
44 2 0.01
ACGTcount: A:0.19, C:0.17, G:0.32, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:58252300 original size:86 final size:86
Alignment explanation
Indices: 58252141--58252452 Score: 423
Period size: 85 Copynumber: 3.7 Consensus size: 86
58252131 AGATTATGTT
* ** * * * * * **
58252141 TTTAGCGGCGTTTTTGCTAGAAGCGCCGCTAAAGGT-TTGTTCTTTAGTGGCATTTTTGATAAAA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAA
*
58252205 GTGCCGCTAAAGGTCATGGT-
66 GCGCCGCTAAAGGTCATGGTC
* *
58252225 TTATAGCGGCGTTTGTGGGAAAACCGCCGCTAAAGGTCTTGGTCTTTAGTGGCGTTTGTGGGAAA
1 TT-TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAA
*
58252290 AGCGCCGCTAAAGGTCCTGGTC
65 AGCGCCGCTAAAGGTCATGGTC
* *
58252312 TTTAGTGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGG-AAA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAA
* *
58252376 GCGCTGCTAAAGGTCTTGGTC
66 GCGCCGCTAAAGGTCATGGTC
*
58252397 TTTAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCTTGGTCTTTAGCGGCGTTT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTT
58252453 TTTCTAAAAA
Statistics
Matches: 204, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
84 2 0.01
85 104 0.51
86 96 0.47
87 2 0.01
ACGTcount: A:0.19, C:0.17, G:0.32, T:0.32
Consensus pattern (86 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAA
GCGCCGCTAAAGGTCATGGTC
Found at i:58252472 original size:128 final size:128
Alignment explanation
Indices: 58252141--58252473 Score: 438
Period size: 128 Copynumber: 2.6 Consensus size: 128
58252131 AGATTATGTT
* ** * * * *
58252141 TTTAGCGGCGTTTTTGCTAGAAGCGCCGCTAAAGGT-TTGTTCTTTAGTGGCATTTTTGATAAAA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGTGGCGTTTTT-TTAAAA
58252205 GTGCCGCTAAAGGTCATGGTTTATAGCGGCGTTTGTGGGAAAACCGCCGCTAAAGGTCTTGGTC
65 GTGCCGCTAAAGGTCATGGTTTATAGCGGCGTTTGTGGGAAAACCGCCGCTAAAGGTCTTGGTC
* * * *
58252269 TTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGTGGCGTTTGTGTGAAAA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGTGGCGTTT-TTTTAAAA
* * * *
58252334 GCGCCGCTAAAGGTCTTGGTCTT-TAGCGGCGTTTGTGGG-AAAGCGCTGCTAAAGGTCTTGGTC
65 GTGCCGCTAAAGGTCATGGT-TTATAGCGGCGTTTGTGGGAAAACCGCCGCTAAAGGTCTTGGTC
* *
58252397 TTTAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCTTGGTCTTTAGCGGCGTTTTTTCTAAAA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGTGGCGTTTTTT-TAAAA
* *
58252462 ATGCCACTAAAG
65 GTGCCGCTAAAG
58252474 TTAGCGACGC
Statistics
Matches: 177, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
127 2 0.01
128 118 0.67
129 54 0.31
130 3 0.02
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.32
Consensus pattern (128 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGTGGCGTTTTTTTAAAAG
TGCCGCTAAAGGTCATGGTTTATAGCGGCGTTTGTGGGAAAACCGCCGCTAAAGGTCTTGGTC
Found at i:58262866 original size:32 final size:31
Alignment explanation
Indices: 58262829--58262888 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
58262819 ACATAAATTT
58262829 AAATA-TTATAACTACTAAATAATTTATTATAA
1 AAATATTTATAA-TACTAAATAA-TTATTATAA
**
58262861 AAATATTTATAATTTTAAATAATTATTA
1 AAATATTTATAATACTAAATAATTATTA
58262889 ATTTGTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 6 0.24
32 13 0.52
33 6 0.24
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (31 bp):
AAATATTTATAATACTAAATAATTATTATAA
Found at i:58262880 original size:16 final size:18
Alignment explanation
Indices: 58262861--58262897 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
58262851 TTTATTATAA
*
58262861 AAATATTTA-TAATTT-T
1 AAATAATTATTAATTTGT
58262877 AAATAATTATTAATTTGT
1 AAATAATTATTAATTTGT
58262895 AAA
1 AAA
58262898 AATAGTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 6 0.33
18 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
AAATAATTATTAATTTGT
Found at i:58263267 original size:19 final size:19
Alignment explanation
Indices: 58263245--58263282 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
58263235 TTTTAAATTT
*
58263245 AAATTA-GTTTTTGGAAAAA
1 AAATTATGTTATT-GAAAAA
58263264 AAATTATGTTATTGAAAAA
1 AAATTATGTTATTGAAAAA
58263283 TATTTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (19 bp):
AAATTATGTTATTGAAAAA
Found at i:58263898 original size:22 final size:22
Alignment explanation
Indices: 58263873--58263964 Score: 112
Period size: 22 Copynumber: 4.2 Consensus size: 22
58263863 AAATTCAATA
* *
58263873 TCAATTTCTTTCAAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
58263895 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
58263917 TCAATTCCCTTCAAAATTTCTA
1 TCAATTCCCTTCAAAAATTCTC
* *
58263939 TCAATTTCCTTCCAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
58263961 TCAA
1 TCAA
58263965 ACTCTCAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 62 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (22 bp):
TCAATTCCCTTCAAAAATTCTC
Found at i:58263980 original size:52 final size:51
Alignment explanation
Indices: 58263914--58264016 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
58263904 TTCAAAATTT
* * *
58263914 CTCTCAATTCCCTT-CAAAATTTCTATCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCCAAAA-TCCTATCAATTTCCTTCAAAAAATCTC-CAAA
*
58263966 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
58264017 TCCATATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.33, C:0.32, G:0.00, T:0.35
Consensus pattern (51 bp):
CTCTCAATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
Found at i:58264005 original size:21 final size:22
Alignment explanation
Indices: 58263966--58264007 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
58263956 TTCTCTCAAA
58263966 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
58263988 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
58264008 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:58264111 original size:29 final size:30
Alignment explanation
Indices: 58264049--58264111 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 30
58264039 ATTAAATTTC
*
58264049 ATTTTTTAAGAAAATTTTAAAATTTTTTAT
1 ATTTTTTAAGAAAATTTTAAAATTTTTAAT
*
58264079 -TTTTTTAA-ATAATTTTAAAATTTTTAAT
1 ATTTTTTAAGAAAATTTTAAAATTTTTAAT
58264107 ATTTT
1 ATTTT
58264112 CAACAATGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (30 bp):
ATTTTTTAAGAAAATTTTAAAATTTTTAAT
Found at i:58264256 original size:24 final size:23
Alignment explanation
Indices: 58264201--58264256 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
58264191 TAAATTTTAA
*
58264201 ATTTTTTTAAGATATTTTTATTT
1 ATTTTTTTAAGATATTTTTATAT
58264224 ATGTATTTTT-AGATATTTATTAATAT
1 AT-T-TTTTTAAGATATTT-TT-ATAT
58264250 ATTTTTT
1 ATTTTTT
58264257 GTTATAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 2 0.07
24 13 0.46
25 8 0.29
26 5 0.18
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (23 bp):
ATTTTTTTAAGATATTTTTATAT
Found at i:58266409 original size:17 final size:18
Alignment explanation
Indices: 58266387--58266421 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
58266377 TAAAATCCCT
58266387 AACCCT-ACTTAATTAAA
1 AACCCTAACTTAATTAAA
*
58266404 AACCCTAATTTAATTAAA
1 AACCCTAACTTAATTAAA
58266422 TTAAAAACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (18 bp):
AACCCTAACTTAATTAAA
Found at i:58266489 original size:28 final size:28
Alignment explanation
Indices: 58266407--58266954 Score: 431
Period size: 28 Copynumber: 19.5 Consensus size: 28
58266397 AATTAAAAAC
58266407 CCTAATTTAATTAAATTAAAAACCCTAAA
1 CCTAATTTAATTAAATTAAAAACCCT-AA
* *
58266436 CCCT-ACTTAATTAAA--AACCCTAACCCTAA
1 -CCTAATTTAATTAAATTAA---AAACCCTAA
58266465 CCTAATTTAATTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
** *
58266493 CCTAACCTACTTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
* *
58266521 CATTATTTAATTAAATTAAAAACCCTAAA
1 CCTAATTTAATTAAATTAAAAACCCT-AA
* *
58266550 CCCT-ACTTAATTAAA--AACCCTAACCCTAA
1 -CCTAATTTAATTAAATTAA---AAACCCTAA
** *
58266579 CCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
*
58266607 CCTAATTTTATTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
* *
58266635 CCTAACCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAA--T---TTAATTAAATTAAAAACCCTAA
** *
58266668 CCTAACCTACTTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
*
58266696 CCTTATTTAATTAAATTAAAAACCCTAAA
1 CCTAATTTAATTAAATTAAAAACCCT-AA
* *
58266725 CCCT-ACTTAATTAAA--AACCCTAACCCTAA
1 -CCTAATTTAATTAAATTAA---AAACCCTAA
** *
58266754 CCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
58266782 CCTAATTTAATTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
**
58266810 CCT-A---ACCT-AATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
* * *
58266833 CCTACTTAAATTAAA--AACCCTAA-CCTAA
1 CCTAATTTAATTAAATTAA---AAACCCTAA
*
58266861 CCTTATTTAATTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
* *
58266889 CC----CTACTT-AATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
58266912 CCTAATTTAATTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
58266940 CCCT-ATTTAATTAAA
1 -CCTAATTTAATTAAA
58266955 AACCCTAATT
Statistics
Matches: 420, Mismatches: 54, Indels: 90
0.74 0.10 0.16
Matches are distributed among these distances:
23 35 0.08
24 6 0.01
26 2 0.00
27 15 0.04
28 230 0.55
29 73 0.17
30 29 0.07
31 6 0.01
33 24 0.06
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (28 bp):
CCTAATTTAATTAAATTAAAAACCCTAA
Found at i:58266577 original size:23 final size:23
Alignment explanation
Indices: 58266375--58266463 Score: 117
Period size: 23 Copynumber: 3.8 Consensus size: 23
58266365 ACATTATTTG
*
58266375 ATTAAAATCCCTAACCCTACTTA
1 ATTAAAAACCCTAACCCTACTTA
** *
58266398 ATTAAAAACCCTAA-TTTAATTAA
1 ATTAAAAACCCTAACCCTACTT-A
58266421 ATTAAAAACCCTAAACCCTACTTA
1 ATTAAAAACCCT-AACCCTACTTA
58266445 ATTAAAAACCCTAACCCTA
1 ATTAAAAACCCTAACCCTA
58266464 ACCTAATTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
22 4 0.07
23 33 0.59
24 15 0.27
25 4 0.07
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (23 bp):
ATTAAAAACCCTAACCCTACTTA
Found at i:58266675 original size:175 final size:175
Alignment explanation
Indices: 58266444--58266954 Score: 735
Period size: 175 Copynumber: 3.0 Consensus size: 175
58266434 AACCCTACTT
** *
58266444 AATTAAAAACCCTAACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTAACCTACTTAAAT
1 AATTAAAAACCCTAA-CCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAACCTACTTAAAT
58266509 TAAAAACCCTAACATTATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAAC
65 TAAAAACCCTAACATTATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAAC
*
58266574 CCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAATTTTATTA
130 CCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTA
58266620 AATTAAAAACCCTAACCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAACCTACTTAAATT
1 AATTAAAAACCCTAACCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAACCTACTTAAATT
*
58266685 AAAAACCCTAACCTTATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACC
66 AAAAACCCTAACATTATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACC
58266750 CTAACCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTA
131 CTAACCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTA
58266795 AATTAAAAA--C---CCTAACCTAACC-----TAATTAAAAA--C---CCTAACCTACTTAAATT
1 AATTAAAAACCCTAACCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAACCTACTTAAATT
58266845 AAAAACCCTAACCTAACCTTATTTAATTAAATTAAAAACCCT-AACCCTACTTAATTAAAAACCC
66 AAAAACCCTAA-C--A--TTATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCC
* *
58266909 TAA-CCTAA--T---TTAATTAAATTAAAAACCCTAACCCT-ATTTAATTA
126 TAACCCTAACCTAACCTAATTTAATTAAAAACCCTAA-CCTAATTTAATTA
58266953 AA
1 AA
58266955 AACCCTAATT
Statistics
Matches: 321, Mismatches: 8, Indels: 30
0.89 0.02 0.08
Matches are distributed among these distances:
158 31 0.10
159 3 0.01
160 28 0.09
161 2 0.01
163 6 0.02
164 25 0.08
165 34 0.11
170 12 0.04
173 1 0.00
175 164 0.51
176 15 0.05
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (175 bp):
AATTAAAAACCCTAACCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAACCTACTTAAATT
AAAAACCCTAACATTATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACC
CTAACCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTA
Found at i:58270352 original size:125 final size:125
Alignment explanation
Indices: 58270130--58270372 Score: 373
Period size: 125 Copynumber: 1.9 Consensus size: 125
58270120 CCACGAGGGT
* *
58270130 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTTATTTCCTACATGACCAACTGTAGC
1 GCGATTTGACACTATTTCCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
* * *
58270195 GAAATCGCGTCCACGAGGGCGCAATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
66 GAAATCGCGTCCACGAGGCCACAATTTCACAATTTCTTCTCAAATAGCATCCTGGTATCA
* *
58270255 GCGATTTTATACTATTTCCTCAGAAAACGTCAAAAAAAAATTATTT-CTCACATGACC-ACTGTA
1 GCGATTTGACACTATTTCCTCAG-AAACGTCAAAAAAAAATTATTTCCT-ACATGACCAACTGTA
* *
58270318 GCGAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCT
64 GCGAAATCGCGTCCACGAGGCCACAATTTCACAATTTCTTCTCAAATAGCATCCT
58270373 AGTAGAAGCA
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
125 78 0.73
126 29 0.27
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (125 bp):
GCGATTTGACACTATTTCCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
GAAATCGCGTCCACGAGGCCACAATTTCACAATTTCTTCTCAAATAGCATCCTGGTATCA
Found at i:58270394 original size:125 final size:125
Alignment explanation
Indices: 58270133--58270409 Score: 364
Period size: 125 Copynumber: 2.2 Consensus size: 125
58270123 CGAGGGTGCG
* * *
58270133 ATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTTATTTCCTACATGACCAACTGTAGCGAA
1 ATTTCACACTATTTCCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAA
* * * * ** *
58270198 ATCGCGTCCACGAGGGCGCAATTTCACAATTTCTTCTCATATAGCATCCTGGTATCAGCG
66 ATCGCGTCCACGAGGCCACAATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAGCA
* *
58270258 ATTTTATACTATTTCCTCAGAAAACGTCAAAAAAAAATTATTT-CTCACATGACC-ACTGTAGCG
1 ATTTCACACTATTTCCTCAG-AAACGTCAAAAAAAAATTATTTCCT-ACATGACCAACTGTAGCG
* *
58270321 AAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAAGCA
64 AAATCGCGTCCACGAGGCCACAATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAGCA
* *
58270383 ATTTCCCACTA-TTAC-CAGAAACGTCAA
1 ATTTCACACTATTTCCTCAGAAACGTCAA
58270410 CTCGAAAAAA
Statistics
Matches: 133, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
122 9 0.07
123 3 0.02
124 3 0.02
125 89 0.67
126 29 0.22
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (125 bp):
ATTTCACACTATTTCCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAA
ATCGCGTCCACGAGGCCACAATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAGCA
Found at i:58275287 original size:29 final size:28
Alignment explanation
Indices: 58275255--58275315 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
58275245 AAAGGCCGGC
58275255 TTTTTTCAA-AATTTACCGAAATGGGCCA
1 TTTTTT-AATAATTTACCGAAATGGGCCA
* *
58275283 GTTTTTTAATTATTTACCGGAATGGGCCA
1 -TTTTTTAATAATTTACCGAAATGGGCCA
58275312 TTTT
1 TTTT
58275316 CCTCGAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (28 bp):
TTTTTTAATAATTTACCGAAATGGGCCA
Found at i:58282223 original size:18 final size:17
Alignment explanation
Indices: 58282190--58282228 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
58282180 TTGTATAAAT
58282190 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
58282208 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
58282225 TGTG
1 TGTG
58282229 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:58282473 original size:23 final size:23
Alignment explanation
Indices: 58282446--58282543 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
58282436 AGTGTTATTG
58282446 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
58282469 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
58282492 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
58282514 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
58282537 ATCAGTG
1 ATCAGTG
58282544 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:58282512 original size:45 final size:45
Alignment explanation
Indices: 58282448--58282536 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
58282438 TGTTATTGAT
* *
58282448 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
58282493 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
58282537 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:58289926 original size:52 final size:48
Alignment explanation
Indices: 58289907--58290109 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
58289897 TGACAAGTGG
* *
58289907 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
58289953 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
58290005 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
58290051 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
58290097 AAAGTGATAAGTG
1 AAAGTGATAAGTG
58290110 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:58289961 original size:98 final size:98
Alignment explanation
Indices: 58289841--58290109 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
58289831 TTTGAGTACT
*
58289841 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
58289906 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
58289939 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
58290004 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
58290037 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
58290102 GATAAGTG
65 GAAAAGTG
58290110 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:58290117 original size:37 final size:37
Alignment explanation
Indices: 58290073--58290218 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
58290063 GATAGCTTTA
*
58290073 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
58290110 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
58290147 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
58290184 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
58290219 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:58291548 original size:58 final size:58
Alignment explanation
Indices: 58291471--58291638 Score: 237
Period size: 58 Copynumber: 3.0 Consensus size: 58
58291461 CATGTGAACA
58291471 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
58291530 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* * *
58291586 TGTG--A--T--TT-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
58291637 TG
1 TG
58291639 ATTACGTGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
49 38 0.37
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 51 0.49
59 5 0.05
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:58291580 original size:28 final size:28
Alignment explanation
Indices: 58291490--58291580 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
58291480 GTGATTCCGT
58291490 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
58291518 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
58291547 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
58291576 GTAAG
1 GTAAG
58291581 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:58291603 original size:49 final size:49
Alignment explanation
Indices: 58291531--58291673 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
58291521 AGTGATATGT
* *
58291531 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
58291580 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
58291629 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
58291674 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:58294884 original size:52 final size:48
Alignment explanation
Indices: 58294865--58295067 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
58294855 TGACAAGTGG
* *
58294865 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
58294911 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
58294963 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
58295009 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
58295055 AAAGTGATAAGTG
1 AAAGTGATAAGTG
58295068 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:58294919 original size:98 final size:98
Alignment explanation
Indices: 58294799--58295067 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
58294789 TTTGAGTACT
*
58294799 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
58294864 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
58294897 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
58294962 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
58294995 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
58295060 GATAAGTG
65 GAAAAGTG
58295068 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:58295075 original size:37 final size:37
Alignment explanation
Indices: 58295031--58295176 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
58295021 GATAGCTTTA
*
58295031 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
58295068 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
58295105 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
58295142 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
58295177 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:58297500 original size:18 final size:17
Alignment explanation
Indices: 58297467--58297505 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
58297457 TTGTATAAAT
58297467 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
58297485 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
58297502 TGTG
1 TGTG
58297506 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:58297789 original size:45 final size:45
Alignment explanation
Indices: 58297725--58297813 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
58297715 TGTTATTGAT
* *
58297725 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
58297770 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
58297814 ATCAATGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:58297814 original size:23 final size:23
Alignment explanation
Indices: 58297723--58297817 Score: 156
Period size: 23 Copynumber: 4.2 Consensus size: 23
58297713 AGTGTTATTG
58297723 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
58297746 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
58297769 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
58297791 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
58297814 ATCA
1 ATCA
58297818 ATGTGGCACT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
22 20 0.30
23 46 0.70
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:58303889 original size:47 final size:47
Alignment explanation
Indices: 58303780--58303875 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
58303770 TTTTATGTAT
*
58303780 TTAAAATTTATATTAATTACTGAAAATAGTACTTAAAATTTATTTTA
1 TTAAAATTTATATTAATTACTGAAAATAGTACTTAAAATTTACTTTA
58303827 TTAAAATTTATATTAATTACTGAAAATAGTACTTAAAATTTACTTTA
1 TTAAAATTTATATTAATTACTGAAAATAGTACTTAAAATTTACTTTA
58303874 TT
1 TT
58303876 TATTATTCTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (47 bp):
TTAAAATTTATATTAATTACTGAAAATAGTACTTAAAATTTACTTTA
Found at i:58305290 original size:11 final size:11
Alignment explanation
Indices: 58305274--58305352 Score: 62
Period size: 11 Copynumber: 7.6 Consensus size: 11
58305264 AATTAATCAC
58305274 ATTAATATTAA
1 ATTAATATTAA
58305285 ATTAATA--AA
1 ATTAATATTAA
* *
58305294 A-TATTATCTAG
1 ATTAATAT-TAA
*
58305305 ATAAATATTAA
1 ATTAATATTAA
58305316 ATTAA-ATTAA
1 ATTAATATTAA
* *
58305326 A-T-ATCTTAT
1 ATTAATATTAA
58305335 ATTAATATTAA
1 ATTAATATTAA
58305346 ATTAATA
1 ATTAATA
58305353 AAATAATATC
Statistics
Matches: 51, Mismatches: 10, Indels: 14
0.68 0.13 0.19
Matches are distributed among these distances:
8 5 0.10
9 8 0.16
10 7 0.14
11 27 0.53
12 4 0.08
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (11 bp):
ATTAATATTAA
Found at i:58305312 original size:31 final size:30
Alignment explanation
Indices: 58305272--58305375 Score: 120
Period size: 31 Copynumber: 3.4 Consensus size: 30
58305262 ATAATTAATC
*
58305272 ACATTAATATTAAATTAATAAAATATTATCT
1 ACATAAATATTAAATTAATAAAATA-TATCT
* * *
58305303 AGATAAATATTAAATTAAATTAAATATCT-T
1 ACATAAATATTAAATT-AATAAAATATATCT
* *
58305333 ATATTAATATTAAATTAATAAAATAATATCT
1 ACATAAATATTAAATTAATAAAAT-ATATCT
58305364 ACATAAATATTA
1 ACATAAATATTA
58305376 CATTTAAGTT
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
29 7 0.12
30 18 0.30
31 27 0.45
32 8 0.13
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (30 bp):
ACATAAATATTAAATTAATAAAATATATCT
Found at i:58312020 original size:31 final size:31
Alignment explanation
Indices: 58311982--58312048 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
58311972 ATCTTAGGAC
58311982 AGTCATCTAAAGAAAAATGAAAACCTAATGT
1 AGTCATCTAAAGAAAAATGAAAACCTAATGT
*
58312013 AGTCATCTAAAGAAAAATGAACACCTAATGT
1 AGTCATCTAAAGAAAAATGAAAACCTAATGT
58312044 AGTCA
1 AGTCA
58312049 ATTGAGTGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.49, C:0.15, G:0.13, T:0.22
Consensus pattern (31 bp):
AGTCATCTAAAGAAAAATGAAAACCTAATGT
Found at i:58315423 original size:419 final size:419
Alignment explanation
Indices: 58314645--58315486 Score: 1684
Period size: 419 Copynumber: 2.0 Consensus size: 419
58314635 TTTTTCTTTT
58314645 TCTCAATTGTTTACTAGTTCTTGATCTATAAAGTAAGTTATTTTAATTTATTAGCTTCAAATTTA
1 TCTCAATTGTTTACTAGTTCTTGATCTATAAAGTAAGTTATTTTAATTTATTAGCTTCAAATTTA
58314710 TATAATATTCCATTTAATACATATAACTTCCTATTTACAATTTTTCACATTTTCCCTAAATTTTT
66 TATAATATTCCATTTAATACATATAACTTCCTATTTACAATTTTTCACATTTTCCCTAAATTTTT
58314775 AAATTTGATTTAATTTGATCCTTAAGACCAAAACAAGATTATTTTCACAATTAATCCCTATACCC
131 AAATTTGATTTAATTTGATCCTTAAGACCAAAACAAGATTATTTTCACAATTAATCCCTATACCC
58314840 AATGAACTGAATTCAATTGCACCCAAGTAAAGTCCACACATGCTGTAATTTTCTAAGAAAACCAT
196 AATGAACTGAATTCAATTGCACCCAAGTAAAGTCCACACATGCTGTAATTTTCTAAGAAAACCAT
58314905 GCCTATTTTCACTTAATTTCAATTTAATCCCTAAACACGAAAACTAATCAAAATCACTTCACAAA
261 GCCTATTTTCACTTAATTTCAATTTAATCCCTAAACACGAAAACTAATCAAAATCACTTCACAAA
58314970 TTAGTACAAACTCAACATCTATCTTTAAACCAAAACATTAGCATCAAAAGCATTAATGGAAAACT
326 TTAGTACAAACTCAACATCTATCTTTAAACCAAAACATTAGCATCAAAAGCATTAATGGAAAACT
58315035 TTACAAACTTTGACATTATTTTAAAATAG
391 TTACAAACTTTGACATTATTTTAAAATAG
58315064 TCTCAATTGTTTACTAGTTCTTGATCTATAAAGTAAGTTATTTTAATTTATTAGCTTCAAATTTA
1 TCTCAATTGTTTACTAGTTCTTGATCTATAAAGTAAGTTATTTTAATTTATTAGCTTCAAATTTA
58315129 TATAATATTCCATTTAATACATATAACTTCCTATTTACAATTTTTCACATTTTCCCTAAATTTTT
66 TATAATATTCCATTTAATACATATAACTTCCTATTTACAATTTTTCACATTTTCCCTAAATTTTT
58315194 AAATTTGATTTAATTTGATCCTTAAGACCAAAACAAGATTATTTTCACAATTAATCCCTATACCC
131 AAATTTGATTTAATTTGATCCTTAAGACCAAAACAAGATTATTTTCACAATTAATCCCTATACCC
58315259 AATGAACTGAATTCAATTGCACCCAAGTAAAGTCCACACATGCTGTAATTTTCTAAGAAAACCAT
196 AATGAACTGAATTCAATTGCACCCAAGTAAAGTCCACACATGCTGTAATTTTCTAAGAAAACCAT
58315324 GCCTATTTTCACTTAATTTCAATTTAATCCCTAAACACGAAAACTAATCAAAATCACTTCACAAA
261 GCCTATTTTCACTTAATTTCAATTTAATCCCTAAACACGAAAACTAATCAAAATCACTTCACAAA
58315389 TTAGTACAAACTCAACATCTATCTTTAAACCAAAACATTAGCATCAAAAGCATTAATGGAAAACT
326 TTAGTACAAACTCAACATCTATCTTTAAACCAAAACATTAGCATCAAAAGCATTAATGGAAAACT
58315454 TTACAAACTTTGACATTATTTTAAAATAG
391 TTACAAACTTTGACATTATTTTAAAATAG
58315483 TCTC
1 TCTC
58315487 TGGGATAGCT
Statistics
Matches: 423, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
419 423 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (419 bp):
TCTCAATTGTTTACTAGTTCTTGATCTATAAAGTAAGTTATTTTAATTTATTAGCTTCAAATTTA
TATAATATTCCATTTAATACATATAACTTCCTATTTACAATTTTTCACATTTTCCCTAAATTTTT
AAATTTGATTTAATTTGATCCTTAAGACCAAAACAAGATTATTTTCACAATTAATCCCTATACCC
AATGAACTGAATTCAATTGCACCCAAGTAAAGTCCACACATGCTGTAATTTTCTAAGAAAACCAT
GCCTATTTTCACTTAATTTCAATTTAATCCCTAAACACGAAAACTAATCAAAATCACTTCACAAA
TTAGTACAAACTCAACATCTATCTTTAAACCAAAACATTAGCATCAAAAGCATTAATGGAAAACT
TTACAAACTTTGACATTATTTTAAAATAG
Found at i:58328383 original size:102 final size:102
Alignment explanation
Indices: 58328207--58328549 Score: 378
Period size: 102 Copynumber: 3.4 Consensus size: 102
58328197 TATCAATGAA
* * *
58328207 CACGTATGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAGTAATGGTCACATGTGTGGTAC
1 CACGTATGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAACTAACGGTCACATGTGTAGTAC
58328272 TAAGTGAAGGCTACTATGTGTACCAAGAAGCTTTGAG
66 TAAGTGAAGGCTACTATGTGTACCAAGAAGCTTTGAG
* * * * * *
58328309 CACGTGTGCAGTACTGTGTGAATGCTACCACGTGTCTCGGTAAACT-ACGGTCACATGTGTAGTA
1 CACGTATGTAGTACTGTGTGAAGGCTACTACGTGTATCGAT-AACTAACGGTCACATGTGTAGTA
58328373 CTAAGTGAAGGCTACTATGTGTACCAAGAAGCTTTGAG
65 CTAAGTGAAGGCTACTATGTGTACCAAGAAGCTTTGAG
* * * * * *
58328411 CACGTCTGTAGTACTGAGTGAAGGCTACTACGTG-AGCCATAA--AACTTGATCACGTGTGTAGT
1 CACGTATGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAACTAAC--GGTCACATGTGTAGT
* * *** *
58328473 ACTATGTGAAGGCTACTACGTGAATTGTAA-AA-C--TGAT
64 ACTAAGTGAAGGCTACTATGTG--TACCAAGAAGCTTTGAG
* *
58328510 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTATGTAGTACTGTGTGAAGGCTACTACGTGTATCGA
58328550 ATGATAAAAA
Statistics
Matches: 203, Mismatches: 31, Indels: 16
0.81 0.12 0.06
Matches are distributed among these distances:
99 36 0.18
100 5 0.02
101 36 0.18
102 120 0.59
103 6 0.03
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (102 bp):
CACGTATGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAACTAACGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCAAGAAGCTTTGAG
Found at i:58328529 original size:49 final size:50
Alignment explanation
Indices: 58328207--58328543 Score: 240
Period size: 51 Copynumber: 6.7 Consensus size: 50
58328197 TATCAATGAA
* * * * *
58328207 CACGTATGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAGTAA--TGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-AACCATAA--AACTTGAT
* * * * * * *
58328258 CACATGTGTGGTACTAAGTGAAGGCTACTATGTGTACCA-AGAAGCTTTGAG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCATA-AAAC-TTGAT
* * * * * * * *
58328309 CACGTGTGCAGTACTGTGTGAATGCTACCACGTG-TCTCGGT-AAACTACGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAAC-C-ATAAAACT-TGAT
* * * * * *
58328360 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCA-AGAAGCTTTGAG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCATA-AAAC-TTGAT
* *
58328411 CACGTCTGTAGTACTGA-GTGAAGGCTACTACGTGAGCCATAAAACTTGAT
1 CACGTGTGTAGTACT-ATGTGAAGGCTACTACGTGAACCATAAAACTTGAT
***
58328461 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATTGTAAAAC-TGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCATAAAACTTGAT
58328510 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
58328544 TATCGAATGA
Statistics
Matches: 220, Mismatches: 51, Indels: 32
0.73 0.17 0.11
Matches are distributed among these distances:
48 1 0.00
49 40 0.18
50 47 0.21
51 128 0.58
52 4 0.02
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCATAAAACTTGAT
Found at i:58337901 original size:26 final size:25
Alignment explanation
Indices: 58337872--58337920 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
58337862 AAATTGGACA
58337872 ATTTTACCTCC-GATAAAATTTTGATG
1 ATTTTACC-CCAG-TAAAATTTTGATG
*
58337898 ATTTTTCCCCAGTAAAATTTTGA
1 ATTTTACCCCAGTAAAATTTTGA
58337921 GAAAATCCGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (25 bp):
ATTTTACCCCAGTAAAATTTTGATG
Found at i:58343046 original size:11 final size:11
Alignment explanation
Indices: 58343032--58343092 Score: 50
Period size: 12 Copynumber: 5.2 Consensus size: 11
58343022 TTGTAATACT
58343032 TTAATTAATTA
1 TTAATTAATTA
* *
58343043 TTAAATAAATA
1 TTAATTAATTA
*
58343054 TTTATTAAATTA
1 TTAATT-AATTA
58343066 TTATATTAAATTA
1 TTA-ATT-AATTA
*
58343079 TTATTGTAATTA
1 TTAAT-TAATTA
58343091 TT
1 TT
58343093 TTATTATTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
11 13 0.32
12 14 0.35
13 13 0.32
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (11 bp):
TTAATTAATTA
Found at i:58343074 original size:13 final size:13
Alignment explanation
Indices: 58343038--58343082 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
58343028 TACTTTAATT
*
58343038 AATTATTA-AATA
1 AATTATTATATTA
58343050 AA-TATT-TATTA
1 AATTATTATATTA
58343061 AATTATTATATTA
1 AATTATTATATTA
58343074 AATTATTAT
1 AATTATTAT
58343083 TGTAATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 9 0.31
12 6 0.21
13 14 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AATTATTATATTA
Found at i:58343089 original size:25 final size:24
Alignment explanation
Indices: 58343026--58343098 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 24
58343016 ATACATTTGT
* *
58343026 AATACTTTAATTAATTATTA-AATA
1 AATA-TTTATTTAATTATTATATTA
*
58343050 AATATTTATTAAATTATTATATTA
1 AATATTTATTTAATTATTATATTA
*
58343074 AAT-TATTATTGTAATTATTTTATTA
1 AATAT-TTATT-TAATTATTATATTA
58343099 TTATCATATT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 14 0.34
24 15 0.37
25 12 0.29
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (24 bp):
AATATTTATTTAATTATTATATTA
Found at i:58343253 original size:19 final size:20
Alignment explanation
Indices: 58343229--58343272 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
58343219 AAGATATTTA
* *
58343229 TAAATATTAATT-AATTAAT
1 TAAATATAAATTAAATAAAT
58343248 TAAATATAAATTAAATAAAT
1 TAAATATAAATTAAATAAAT
58343268 TAAAT
1 TAAAT
58343273 GGTGCCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAATATAAATTAAATAAAT
Found at i:58343378 original size:19 final size:19
Alignment explanation
Indices: 58343338--58343392 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 19
58343328 CTTGTGTTAT
* * *
58343338 AATTAAAAGA-TATTTATT
1 AATTAAATGATTATTAATA
58343356 AATTAAATGATTATTAATA
1 AATTAAATGATTATTAATA
* *
58343375 AATTATATTATTA-TAATA
1 AATTAAATGATTATTAATA
58343393 TAAAGCAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (19 bp):
AATTAAATGATTATTAATA
Found at i:58343433 original size:4 final size:5
Alignment explanation
Indices: 58343394--58343455 Score: 51
Period size: 5 Copynumber: 12.4 Consensus size: 5
58343384 ATTATAATAT
*
58343394 AAAGC AAAGA AATA-A AAAGA AAAGA AAAGA AAAG- AAAGA AACA-A AACA-A
1 AAAGA AAAGA AA-AGA AAAGA AAAGA AAAGA AAAGA AAAGA AA-AGA AA-AGA
58343443 AGAAGA AAAGA AA
1 A-AAGA AAAGA AA
58343456 CAGAGAGCAA
Statistics
Matches: 50, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
4 5 0.10
5 40 0.80
6 5 0.10
ACGTcount: A:0.77, C:0.05, G:0.16, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:58345475 original size:222 final size:222
Alignment explanation
Indices: 58345089--58345531 Score: 868
Period size: 222 Copynumber: 2.0 Consensus size: 222
58345079 AAATTTTAGT
*
58345089 GATGTATTTCTTCCTTTTGTTTAAGTGGCATGTACTAGGTGATTGTACATGAGTCGTATATATAT
1 GATGTATTTCTTCCTTTTGTTTAAGTGGCATGTACTAGGTGATTGTACATGAGTCATATATATAT
58345154 ATATACTAAATGATCTTAGTTGTAAGTAATGGTTATAATCTTTTGAATGATAAATAAAGTAGTGA
66 ATATACTAAATGATCTTAGTTGTAAGTAATGGTTATAATCTTTTGAATGATAAATAAAGTAGTGA
*
58345219 ATCAATTTATTAAGCATGATTTAGTAGCGTTTTAAAGTATAAAATTATTGATTGAAATATTGGTA
131 ATCAATTTATTAAGCATGATTAAGTAGCGTTTTAAAGTATAAAATTATTGATTGAAATATTGGTA
58345284 TTGGGTTGTTTTTGGTTTTAAGTTTGC
196 TTGGGTTGTTTTTGGTTTTAAGTTTGC
58345311 GATGTATTTCTTCCTTTTGTTTAAGTGGCATGTACTAGGTGATTGTACATGAGTCATATATATAT
1 GATGTATTTCTTCCTTTTGTTTAAGTGGCATGTACTAGGTGATTGTACATGAGTCATATATATAT
58345376 ATATACTAAATGATCTTAGTTGTAAGTAATGGTTATAATCTTTTGAATGATAAATAAAGTAGTGA
66 ATATACTAAATGATCTTAGTTGTAAGTAATGGTTATAATCTTTTGAATGATAAATAAAGTAGTGA
58345441 ATCAATTTATTAAGCATGATTAAGTAGCGTTTTAAAGTATAAAATTATTGATTGAAATATTGGTA
131 ATCAATTTATTAAGCATGATTAAGTAGCGTTTTAAAGTATAAAATTATTGATTGAAATATTGGTA
58345506 TTGGGTTGTTTTTGGTTTTAAGTTTG
196 TTGGGTTGTTTTTGGTTTTAAGTTTG
58345532 TAGGGGGTTT
Statistics
Matches: 219, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
222 219 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (222 bp):
GATGTATTTCTTCCTTTTGTTTAAGTGGCATGTACTAGGTGATTGTACATGAGTCATATATATAT
ATATACTAAATGATCTTAGTTGTAAGTAATGGTTATAATCTTTTGAATGATAAATAAAGTAGTGA
ATCAATTTATTAAGCATGATTAAGTAGCGTTTTAAAGTATAAAATTATTGATTGAAATATTGGTA
TTGGGTTGTTTTTGGTTTTAAGTTTGC
Found at i:58349366 original size:5 final size:5
Alignment explanation
Indices: 58349356--58349384 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
58349346 TTTAGGGGTT
58349356 TGTTA TGTTA TGTTA TGTTA TGTTA TGTT
1 TGTTA TGTTA TGTTA TGTTA TGTTA TGTT
58349385 TTTTTTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.21, T:0.62
Consensus pattern (5 bp):
TGTTA
Found at i:58351674 original size:12 final size:12
Alignment explanation
Indices: 58351657--58351681 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58351647 GGATAAACTA
58351657 ATATTTAGTTTT
1 ATATTTAGTTTT
58351669 ATATTTAGTTTT
1 ATATTTAGTTTT
58351681 A
1 A
58351682 AAGTTAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (12 bp):
ATATTTAGTTTT
Found at i:58352238 original size:13 final size:13
Alignment explanation
Indices: 58352222--58352246 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58352212 TAATTAAAGG
58352222 GTTAAAATTTAAT
1 GTTAAAATTTAAT
58352235 GTTAAAATTTAA
1 GTTAAAATTTAA
58352247 AGATGATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
GTTAAAATTTAAT
Found at i:58352314 original size:9 final size:9
Alignment explanation
Indices: 58352300--58352399 Score: 50
Period size: 9 Copynumber: 11.6 Consensus size: 9
58352290 AACTTTGGAT
58352300 CATAACTTA
1 CATAACTTA
58352309 CATAACTTA
1 CATAACTTA
58352318 CATAA--TA
1 CATAACTTA
*
58352325 CATAA-ATA
1 CATAACTTA
* * *
58352333 TATATCATA
1 CATAACTTA
*
58352342 TCATAACTTG
1 -CATAACTTA
58352352 CATAACTTA
1 CATAACTTA
*
58352361 TATAA--TA
1 CATAACTTA
*
58352368 CATAA-ATA
1 CATAACTTA
* * *
58352376 TATATCATA
1 CATAACTTA
58352385 TCATAACTTA
1 -CATAACTTA
58352395 CATAA
1 CATAA
58352400 ATATATAAAA
Statistics
Matches: 71, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
7 13 0.18
8 10 0.14
9 37 0.52
10 11 0.15
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:58352345 original size:43 final size:43
Alignment explanation
Indices: 58352298--58352399 Score: 186
Period size: 43 Copynumber: 2.4 Consensus size: 43
58352288 AAAACTTTGG
58352298 ATCATAACTTACATAACTTACATAATACATAAATATATATCAT
1 ATCATAACTTACATAACTTACATAATACATAAATATATATCAT
* *
58352341 ATCATAACTTGCATAACTTATATAATACATAAATATATATCAT
1 ATCATAACTTACATAACTTACATAATACATAAATATATATCAT
58352384 ATCATAACTTACATAA
1 ATCATAACTTACATAA
58352400 ATATATAAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.35
Consensus pattern (43 bp):
ATCATAACTTACATAACTTACATAATACATAAATATATATCAT
Found at i:58356534 original size:11 final size:11
Alignment explanation
Indices: 58356500--58356534 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
58356490 GTTGTTGTTG
58356500 TTTTACTATTA
1 TTTTACTATTA
*
58356511 TATTACTATTA
1 TTTTACTATTA
*
58356522 TTTTATTATTA
1 TTTTACTATTA
58356533 TT
1 TT
58356535 GTTTGGATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTTACTATTA
Found at i:58357444 original size:22 final size:22
Alignment explanation
Indices: 58357416--58357457 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
58357406 TTCCAAACAA
58357416 TAATAACAAAATAGTAGCAATG
1 TAATAACAAAATAGTAGCAATG
58357438 TAATAACAAAATAGTAGCAA
1 TAATAACAAAATAGTAGCAA
58357458 AACAAAGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.10, G:0.12, T:0.21
Consensus pattern (22 bp):
TAATAACAAAATAGTAGCAATG
Found at i:58367232 original size:6 final size:6
Alignment explanation
Indices: 58367190--58367221 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
58367180 AGAGAGAAAT
58367190 AGAGTG AGAGTG AGAGTG AGAGTG AGAGTG AG
1 AGAGTG AGAGTG AGAGTG AGAGTG AGAGTG AG
58367222 TGAAAGTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.50, T:0.16
Consensus pattern (6 bp):
AGAGTG
Found at i:58368387 original size:24 final size:24
Alignment explanation
Indices: 58368372--58368420 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
58368362 AATCAATGTC
*
58368372 AAATATATTATGCTAATAAATACT
1 AAATATATTATACTAATAAATACT
58368396 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATACT
58368420 A
1 A
58368421 CATCTTCTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:58371263 original size:57 final size:58
Alignment explanation
Indices: 58371157--58371272 Score: 182
Period size: 57 Copynumber: 2.0 Consensus size: 58
58371147 CGGTAAAAGG
58371157 ATCTAGCCCGGACGGGTGATCTTATCCTGATATAGCCCTCCCGAAGAATATGTGTGAAAAAA
1 ATCTAGCCCGGACGGGTGATC-T-T-CTGATATAGCCCTCCCGAAGAATATGTG-GAAAAAA
58371219 ATCTAGCCCGGACGGGTGATC-T-TGATATAGCCCTCCCGAAGAATATGTGGAAAA
1 ATCTAGCCCGGACGGGTGATCTTCTGATATAGCCCTCCCGAAGAATATGTGGAAAA
58371273 TGGATTTAGC
Statistics
Matches: 54, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
56 5 0.09
57 27 0.50
59 1 0.02
62 21 0.39
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.23
Consensus pattern (58 bp):
ATCTAGCCCGGACGGGTGATCTTCTGATATAGCCCTCCCGAAGAATATGTGGAAAAAA
Found at i:58376164 original size:24 final size:24
Alignment explanation
Indices: 58376149--58376200 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
58376139 AATCAATGTC
*
58376149 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
*
58376173 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATGCT
58376197 AAAT
1 AAAT
58376201 CTATCTGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATGCT
Found at i:58377777 original size:45 final size:45
Alignment explanation
Indices: 58377712--58377861 Score: 214
Period size: 45 Copynumber: 3.3 Consensus size: 45
58377702 ATGTGCCAAC
* *
58377712 TACTGTTACTGTTACTGATTCGACACTTTGTGTGTCGAATACTAT
1 TACTGTTACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGT
* *
58377757 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGT
*
58377802 TA-TCGTTACTGTTACAGATTC-AGCACTTTGTGTGTTGAATACTGT
1 TACT-GTTACTGTTACAGATTCGA-CACTTTGTGTGTCGAATACTGT
*
58377847 TACTGTTAATGTTAC
1 TACTGTTACTGTTAC
58377862 TGCTACCGTT
Statistics
Matches: 95, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
44 1 0.01
45 93 0.98
46 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGT
Found at i:58377852 original size:6 final size:6
Alignment explanation
Indices: 58377841--58377889 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
58377831 GTGTGTTGAA
* * *
58377841 TACTGT TACTGT TAATGT TACTGC TACCGT TACTGAT TACTGTT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTG-T TACTG
58377890 GTGCGTTTGG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
6 23 0.66
7 12 0.34
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:58380457 original size:17 final size:17
Alignment explanation
Indices: 58380435--58380467 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
58380425 ATCTGTTGTT
*
58380435 TTAATTTTTTTATATTA
1 TTAATTTTATTATATTA
58380452 TTAATTTTATTATATT
1 TTAATTTTATTATATT
58380468 GTATATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTAATTTTATTATATTA
Found at i:58392990 original size:41 final size:41
Alignment explanation
Indices: 58392831--58393180 Score: 208
Period size: 44 Copynumber: 8.3 Consensus size: 41
58392821 CGGTGAAACT
* *
58392831 TCAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGAAAA
1 TCAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT--AG--AA
* * * * *
58392876 T-AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
1 TCAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAGAA
* * ** * *
58392916 TCAGATCTTATCTTTCTGAAGTTGTAGAAGAGCAGA-TCGCA
1 TCAG-TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAGAA
58392957 TCCAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGAAAA
1 T-CAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT--AG--AA
* * * * * *
58393003 T-AATCCTATCTCTTTAAAGTTGCAGTGGAGCGGATTAAAA
1 TCAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAGAA
* * ** * *
58393043 TCAGATCTTATCTCTTTGAAGTTACAGAAGAGCAGA-TCGCA
1 TCAG-TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAGAA
* * *
58393084 TCCAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAGATGA
1 T-CAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT-TAGA--A
* ** * *
58393129 T-AGATCTCATCTCTCTGCGGTTGCAGTAGAGCAGATT-GTA
1 TCAG-TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAGAA
*
58393169 TCAGACTTATCT
1 TCAGTCTTATCT
58393181 TTAAAGTTGT
Statistics
Matches: 231, Mismatches: 57, Indels: 39
0.71 0.17 0.12
Matches are distributed among these distances:
40 14 0.06
41 62 0.27
42 59 0.26
43 3 0.01
44 88 0.38
45 3 0.01
46 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (41 bp):
TCAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAGAA
Found at i:58393155 original size:127 final size:127
Alignment explanation
Indices: 58392832--58393120 Score: 490
Period size: 127 Copynumber: 2.3 Consensus size: 127
58392822 GGTGAAACTT
* *
58392832 CAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGAAAATAATCCTATCTCCCTGAAGTT
1 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAATAATCCTATCTCTCTGAAGTT
**
58392897 GCAGTGGAGCGGATTAAAATCAGATCTTATCTTTCTGAAGTTGTAGAAGAGCAGATCGCATC
66 GCAGTGGAGCGGATTAAAATCAGATCTTATCTTTCTGAAGTTACAGAAGAGCAGATCGCATC
* * *
58392959 CAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGAAAATAATCCTATCTCTTTAAAGTT
1 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAATAATCCTATCTCTCTGAAGTT
58393024 GCAGTGGAGCGGATTAAAATCAGATCTTATCTCTT-TGAAGTTACAGAAGAGCAGATCGCATC
66 GCAGTGGAGCGGATTAAAATCAGATCTTATCT-TTCTGAAGTTACAGAAGAGCAGATCGCATC
*
58393086 CAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
58393121 CAAGATGATA
Statistics
Matches: 152, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
127 150 0.99
128 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (127 bp):
CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAATAATCCTATCTCTCTGAAGTT
GCAGTGGAGCGGATTAAAATCAGATCTTATCTTTCTGAAGTTACAGAAGAGCAGATCGCATC
Found at i:58394486 original size:17 final size:17
Alignment explanation
Indices: 58394464--58394496 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
58394454 ATCTGTTGTT
*
58394464 TTAATTTTTTTATATTA
1 TTAATTTTATTATATTA
58394481 TTAATTTTATTATATT
1 TTAATTTTATTATATT
58394497 GTATATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTAATTTTATTATATTA
Found at i:58400506 original size:21 final size:22
Alignment explanation
Indices: 58400482--58400523 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
58400472 TATTTAAATT
58400482 AAAT-TAAATTATAAAA-TATAC
1 AAATATAAA-TATAAAAGTATAC
*
58400503 AAATATTAATATAAAAGTATA
1 AAATATAAATATAAAAGTATA
58400524 TATTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
AAATATAAATATAAAAGTATAC
Found at i:58403179 original size:4 final size:4
Alignment explanation
Indices: 58403170--58403197 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
58403160 AATGGAAACG
58403170 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
58403198 ATGAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:58403204 original size:9 final size:9
Alignment explanation
Indices: 58403171--58403208 Score: 53
Period size: 8 Copynumber: 4.4 Consensus size: 9
58403161 ATGGAAACGT
58403171 AAATAAAT-
1 AAATAAATA
58403179 AAATAAAT-
1 AAATAAATA
58403187 AAATAAATA
1 AAATAAATA
*
58403196 AAATGAATA
1 AAATAAATA
58403205 AAAT
1 AAAT
58403209 TATAAAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
8 16 0.57
9 12 0.43
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (9 bp):
AAATAAATA
Found at i:58403499 original size:34 final size:34
Alignment explanation
Indices: 58403461--58403527 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
58403451 ATTTTGAAAT
*
58403461 TATAAAATATAAAAGACATATATATGTGTATATG
1 TATAAAATATAAAAGACATATATATATGTATATG
** * * *
58403495 TATAAGTTATAAAATATATATGTATATGTATAT
1 TATAAAATATAAAAGACATATATATATGTATAT
58403528 ATATTATAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.48, C:0.01, G:0.10, T:0.40
Consensus pattern (34 bp):
TATAAAATATAAAAGACATATATATATGTATATG
Found at i:58403535 original size:30 final size:28
Alignment explanation
Indices: 58403480--58403538 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 28
58403470 TAAAAGACAT
* *
58403480 ATATATGTGTATATGTATAAGTTATAAA
1 ATATATATGTATATGTATAAATTATAAA
58403508 ATATATATGTATATGTATATATATTATAAA
1 ATATATATGTATATGTATA-A-ATTATAAA
58403538 A
1 A
58403539 ACGTATGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 18 0.67
29 1 0.04
30 8 0.30
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (28 bp):
ATATATATGTATATGTATAAATTATAAA
Found at i:58405028 original size:5 final size:5
Alignment explanation
Indices: 58405020--58405052 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
58405010 CAATCAAAAC
58405020 AAAGT AAAGT AAAGT AAAGT AAAGT AAAGT AAA
1 AAAGT AAAGT AAAGT AAAGT AAAGT AAAGT AAA
58405053 AGACTGAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.18, T:0.18
Consensus pattern (5 bp):
AAAGT
Found at i:58413748 original size:17 final size:19
Alignment explanation
Indices: 58413717--58413753 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
58413707 GTATATTAGT
58413717 AAATTAATAAAAAA-TAAA
1 AAATTAATAAAAAATTAAA
*
58413735 AAATT-ATAATAAATTAAA
1 AAATTAATAAAAAATTAAA
58413753 A
1 A
58413754 GGTAAAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (19 bp):
AAATTAATAAAAAATTAAA
Found at i:58414082 original size:16 final size:17
Alignment explanation
Indices: 58414061--58414100 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
58414051 TGTTAATTTT
58414061 AATGTTAAAG-GACT-AA
1 AATGTTAAAGTGA-TAAA
58414077 AATGTTAAAGTGATAAA
1 AATGTTAAAGTGATAAA
58414094 AATGTTA
1 AATGTTA
58414101 GGACTTGAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.50, C:0.03, G:0.17, T:0.30
Consensus pattern (17 bp):
AATGTTAAAGTGATAAA
Found at i:58414793 original size:45 final size:44
Alignment explanation
Indices: 58414678--58415024 Score: 216
Period size: 45 Copynumber: 7.7 Consensus size: 44
58414668 ATGAAACGGA
* * * * ** * *
58414678 TAAGACCATAGTTGAAAGACATTATGACATTATACCGGAATTGAA
1 TAAGACCATAGCTGAAAAACATTATGGCATCATACTTGAA-CGAG
* * *
58414723 TAAGACCATAGTTGAAAGAA-ATTATGACATCATACTAGAACCGAG
1 TAAGACCATAGCTGAAA-AACATTATGGCATCATACTTGAA-CGAG
* * * * * *
58414768 TAAAACCATAGCTGAAAAACGTTATGGCATCACGATTTTAACAAG
1 TAAGACCATAGCTGAAAAACATTATGGCATCA-TACTTGAACGAG
* * * * *
58414813 TAAGATCATAGCTGAAAGACGTTATGGCATCATGATTTTAACGAG
1 TAAGACCATAGCTGAAAAACATTATGGCATCAT-ACTTGAACGAG
* * * * *
58414858 TAAGACCATAGCTGAAATACATTATGGCATCACGAGTTTAATGAG
1 TAAGACCATAGCTGAAAAACATTATGGCATCA-TACTTGAACGAG
* * *
58414903 TAAGACCATAGCT-AAAAGACGTTATGGCATCACGA-TTCTAACGAG
1 TAAGACCATAGCTGAAAA-ACATTATGGCATCA-TACTT-GAACGAG
* * * * *
58414948 TAAGACCATAGCTGAAAGACACTATAGCATCACGA-TTCTAACGAG
1 TAAGACCATAGCTGAAAAACATTATGGCATCA-TACTT-GAACGAG
* * **
58414993 TAAGACCATAGTTGAAAGACGCTATGGCATCA
1 TAAGACCATAGCTGAAAAACATTATGGCATCA
58415025 CGATTCTAAC
Statistics
Matches: 257, Mismatches: 37, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
44 7 0.03
45 242 0.94
46 8 0.03
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (44 bp):
TAAGACCATAGCTGAAAAACATTATGGCATCATACTTGAACGAG
Done.