Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 130 of 320
Found at i:42584530 original size:41 final size:41
Alignment explanation
Indices: 42584485--42584646 Score: 234
Period size: 41 Copynumber: 4.0 Consensus size: 41
42584475 AGGAAGTATA
* * *
42584485 TGAGGATCGCATGGTTGCTTAACAACCATGGATCCACCGAT
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
*
42584526 TGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCGAT
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
*
42584567 TGAGGATAGCATGGTTGCTTGACGACCGTGGATCCACCGAT
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
* * ** *
42584608 TAAGGATCACATTCTTGCTTGACGATCGTGGATCCACCG
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
42584647 GTGGCTTTTA
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 109 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (41 bp):
TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
Found at i:42584819 original size:22 final size:21
Alignment explanation
Indices: 42584794--42584852 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
42584784 TATTCTAATC
42584794 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCT-TGTGCCAACCTAAAT
* * * *
42584816 ATGGCTTTGTACCATCTTAACT
1 ATGGC-TTGTGCCAACCTAAAT
42584838 ATGGCTTCGTGCCAA
1 ATGGCTT-GTGCCAA
42584853 ACGTATTTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
21 2 0.07
22 26 0.90
23 1 0.03
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (21 bp):
ATGGCTTGTGCCAACCTAAAT
Found at i:42587781 original size:27 final size:27
Alignment explanation
Indices: 42587751--42588011 Score: 126
Period size: 27 Copynumber: 9.7 Consensus size: 27
42587741 CTGGGTTTTC
*
42587751 AAAATTACCAAAATACCCTCGATTAGA
1 AAAATTACCAAAATACCCTCGATTAGT
* * * *
42587778 AAAAGTACCAAAATACCCCTAGTTTACT
1 AAAATTACCAAAATA-CCCTCGATTAGT
** * *
42587806 -AAATTA-CTGAATATCCC-CGATTTGC
1 AAAATTACCAAAATA-CCCTCGATTAGT
* * * * *
42587831 AAAATTATCGAAATACCCCCAATTTGT
1 AAAATTACCAAAATACCCTCGATTAGT
*
42587858 AAAATTATCAAAATATCCCT-GATTTA-T
1 AAAATTACCAAAATA-CCCTCGA-TTAGT
* * * *
42587885 AAAATTATCGAAATACCATTG--TAGTTT
1 AAAATTACCAAAATACCCTCGATTAG--T
** * *
42587912 GGAATTACCGAAATACCCTCGATTTGT
1 AAAATTACCAAAATACCCTCGATTAGT
* *
42587939 AAAATTACTAAAATACCC-CTAATTTA-T
1 AAAATTACCAAAATACCCTC-GA-TTAGT
* * *
42587966 AACATTACCGAAATACCCTCGATTGGT
1 AAAATTACCAAAATACCCTCGATTAGT
*
42587993 AAAATTATCAAAATACCCT
1 AAAATTACCAAAATACCCT
42588012 TGTAGTGCAG
Statistics
Matches: 174, Mismatches: 44, Indels: 32
0.70 0.18 0.13
Matches are distributed among these distances:
24 2 0.01
25 3 0.02
26 23 0.13
27 128 0.74
28 16 0.09
29 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTAGT
Found at i:42587937 original size:81 final size:81
Alignment explanation
Indices: 42587833--42587982 Score: 221
Period size: 81 Copynumber: 1.9 Consensus size: 81
42587823 CGATTTGCAA
* * * *
42587833 AATTATCGAAATACCCCCAATTTGTAAAATTA-TCAAAATATCCCTGATTTATAAAATTATCGAA
1 AATTACCGAAATACCCCCAATTTGTAAAATTACT-AAAATACCCCTAATTTATAAAATTACCGAA
42587897 ATACCATTGTAGTTTGG
65 ATACCATTGTAGTTTGG
* * *
42587914 AATTACCGAAATACCCTCGATTTGTAAAATTACTAAAATACCCCTAATTTATAACATTACCGAAA
1 AATTACCGAAATACCCCCAATTTGTAAAATTACTAAAATACCCCTAATTTATAAAATTACCGAAA
42587979 TACC
66 TACC
42587983 CTCGATTGGT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
81 60 0.98
82 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (81 bp):
AATTACCGAAATACCCCCAATTTGTAAAATTACTAAAATACCCCTAATTTATAAAATTACCGAAA
TACCATTGTAGTTTGG
Found at i:42587963 original size:108 final size:108
Alignment explanation
Indices: 42587751--42588064 Score: 293
Period size: 108 Copynumber: 2.9 Consensus size: 108
42587741 CTGGGTTTTC
* * * * * *
42587751 AAAATTACCAAAATACCCTCGATTAGA-AAAAGTACCAAAATACCCCTAGT-TTACTA-AATTAC
1 AAAATTACCAAAATACCCTCGATT-GATAAAATTATCAAAATA-CCATTGTAGTGC-AGAATTAC
* * * *
42587813 TG-AATATCCC-CGATTTGCAAAATTATCGAAATACCCCCAATTTGT
63 CGAAATA-CCCTCGATTTGTAAAATTATCAAAATACCCCCAATTTAT
* * * ***
42587858 AAAATTATCAAAATATCCCT-GATTTATAAAATTATCGAAATACCATTGTAGTTTGGAATTACCG
1 AAAATTACCAAAATA-CCCTCGATTGATAAAATTATCAAAATACCATTGTAGTGCAGAATTACCG
*
42587922 AAATACCCTCGATTTGTAAAATTA-CTAAAATACCCCTAATTTAT
65 AAATACCCTCGATTTGTAAAATTATC-AAAATACCCCCAATTTAT
* * * *
42587966 AACATTACCGAAATACCCTCGATTGGTAAAATTATCAAAATACCCTTGTAGTGCAGAATTACCGA
1 AAAATTACCAAAATACCCTCGATTGATAAAATTATCAAAATACCATTGTAGTGCAGAATTACCGA
* * *
42588031 AAGA-CCTCCAATTTGTAAAATTATCGAAATACCC
66 AATACCCT-CGATTTGTAAAATTATCAAAATACCC
42588065 TTGTAGTGTA
Statistics
Matches: 168, Mismatches: 29, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
106 6 0.04
107 49 0.29
108 112 0.67
109 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (108 bp):
AAAATTACCAAAATACCCTCGATTGATAAAATTATCAAAATACCATTGTAGTGCAGAATTACCGA
AATACCCTCGATTTGTAAAATTATCAAAATACCCCCAATTTAT
Found at i:42588025 original size:27 final size:27
Alignment explanation
Indices: 42587884--42588105 Score: 148
Period size: 27 Copynumber: 8.2 Consensus size: 27
42587874 CCCTGATTTA
* * *
42587884 TAAAATTATCGAAATACCATTGTAGTT
1 TAAAATTACCGAAATACCCTTGTAGTG
** * *
42587911 TGGAATTACCGAAATACCCTCG-ATTTG
1 TAAAATTACCGAAATACCCTTGTA-GTG
** * * *
42587938 TAAAATTACTAAAATACCC--CTAATT
1 TAAAATTACCGAAATACCCTTGTAGTG
* *
42587963 TATAACATTACCGAAATACCCTCG-ATTGG
1 TA-AA-ATTACCGAAATACCCTTGTAGT-G
* *
42587992 TAAAATTATCAAAATACCCTTGTAGTG
1 TAAAATTACCGAAATACCCTTGTAGTG
* * * *** *
42588019 CAGAATTACCGAAAGA-CCTCCAATTTG
1 TAAAATTACCGAAATACCCTTGTA-GTG
*
42588046 TAAAATTATCGAAATACCCTTGTAGTG
1 TAAAATTACCGAAATACCCTTGTAGTG
42588073 TAAAATTACCGAAATACCCTTGTAGTG
1 TAAAATTACCGAAATACCCTTGTAGTG
42588100 TAAAAT
1 TAAAAT
42588106 GACAAGCATA
Statistics
Matches: 144, Mismatches: 41, Indels: 20
0.70 0.20 0.10
Matches are distributed among these distances:
25 3 0.02
26 8 0.06
27 121 0.84
28 10 0.07
29 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTTGTAGTG
Found at i:42588093 original size:81 final size:81
Alignment explanation
Indices: 42587858--42588105 Score: 241
Period size: 81 Copynumber: 3.1 Consensus size: 81
42587848 CCCAATTTGT
* * * * * * **
42587858 AAAATTATCAAAATATCCCTGATTTATAAAATTATCGAAATACCATTGTAGTTTGGAATTACCGA
1 AAAATTACCAAAAGACCCCTAATTTATAAAATTATCGAAATACCCTTGTAGTGTAAAATTACCGA
* * *
42587923 AATACCCTCG-ATTTGT
66 AATACCCTTGTA-GTGC
* * * * * * * *
42587939 AAAATTACTAAAATACCCCTAATTTATAACATTACCGAAATACCCTCG-ATTGGTAAAATTATCA
1 AAAATTACCAAAAGACCCCTAATTTATAAAATTATCGAAATACCCTTGTAGT-GTAAAATTACCG
42588003 AAATACCCTTGTAGTGC
65 AAATACCCTTGTAGTGC
* * *
42588020 AGAATTACCGAAAGACCTCC-AATTTGTAAAATTATCGAAATACCCTTGTAGTGTAAAATTACCG
1 AAAATTACCAAAAGACC-CCTAATTTATAAAATTATCGAAATACCCTTGTAGTGTAAAATTACCG
*
42588084 AAATACCCTTGTAGTGT
65 AAATACCCTTGTAGTGC
42588101 AAAAT
1 AAAAT
42588106 GACAAGCATA
Statistics
Matches: 133, Mismatches: 30, Indels: 8
0.78 0.18 0.05
Matches are distributed among these distances:
80 2 0.02
81 126 0.95
82 5 0.04
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (81 bp):
AAAATTACCAAAAGACCCCTAATTTATAAAATTATCGAAATACCCTTGTAGTGTAAAATTACCGA
AATACCCTTGTAGTGC
Found at i:42588105 original size:54 final size:54
Alignment explanation
Indices: 42587751--42588092 Score: 254
Period size: 54 Copynumber: 6.4 Consensus size: 54
42587741 CTGGGTTTTC
* * * * * * *
42587751 AAAATTACCAAAATACCCTCGATTAGAAAAAGTACCAAAATACCC--CTAGTTT
1 AAAATTACCGAAATACCCTCGATTTGTAAAATTATCAAAATACCCTTGTAGTGT
* * * *** *
42587803 ACTAAATTACTG-AATATCCC-CGATTTGCAAAATTATCGAAATACCC-CCAATTTGT
1 A--AAATTACCGAAATA-CCCTCGATTTGTAAAATTATCAAAATACCCTTGTA-GTGT
* * * * * *
42587858 AAAATTATCAAAATATCCCT-GATTTATAAAATTATCGAAATACCATTGTAGTTT
1 AAAATTACCGAAATA-CCCTCGATTTGTAAAATTATCAAAATACCCTTGTAGTGT
** * * *
42587912 GGAATTACCGAAATACCCTCGATTTGTAAAATTA-CTAAAATACCC--CTAATTT
1 AAAATTACCGAAATACCCTCGATTTGTAAAATTATC-AAAATACCCTTGTAGTGT
* *
42587964 ATAACATTACCGAAATACCCTCGATTGGTAAAATTATCAAAATACCCTTGTAGTGC
1 A-AA-ATTACCGAAATACCCTCGATTTGTAAAATTATCAAAATACCCTTGTAGTGT
* * * *
42588020 AGAATTACCGAAAGA-CCTCCAATTTGTAAAATTATCGAAATACCCTTGTAGTGT
1 AAAATTACCGAAATACCCT-CGATTTGTAAAATTATCAAAATACCCTTGTAGTGT
42588074 AAAATTACCGAAATACCCT
1 AAAATTACCGAAATACCCT
42588093 TGTAGTGTAA
Statistics
Matches: 228, Mismatches: 45, Indels: 31
0.75 0.15 0.10
Matches are distributed among these distances:
52 6 0.03
53 40 0.18
54 169 0.74
55 9 0.04
56 4 0.02
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (54 bp):
AAAATTACCGAAATACCCTCGATTTGTAAAATTATCAAAATACCCTTGTAGTGT
Found at i:42588116 original size:27 final size:26
Alignment explanation
Indices: 42588044--42588135 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 26
42588034 ACCTCCAATT
*
42588044 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATGA-CGAAATACCCTTGTAG
*
42588071 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATGA-CGAAATACCCTTGTAG
*
42588098 TGTAAAATGAC-AAGCATACCCCTGTAG
1 TGTAAAATGACGAA--ATACCCTTGTAG
*
42588125 GGTAAAATGAC
1 TGTAAAATGAC
42588136 TGTTTTGCTC
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
25 2 0.03
26 1 0.02
27 56 0.95
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.27
Consensus pattern (26 bp):
TGTAAAATGACGAAATACCCTTGTAG
Found at i:42588410 original size:41 final size:41
Alignment explanation
Indices: 42588365--42588485 Score: 170
Period size: 41 Copynumber: 3.0 Consensus size: 41
42588355 AGGAAGTTTA
*
42588365 TGAGGATCGCATGGTTGCTTGACGACCATGGATCCACCAAT
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCAAT
* * *
42588406 TGAGGATCGCATGGTTGCTTGACGATCGTAGATCCACCGAT
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCAAT
* * * *
42588447 TAAGGATCGCATGCTTACTTGACGACCGTGGATCAACCA
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCA
42588486 GTGGCTTTTA
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (41 bp):
TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCAAT
Found at i:42588665 original size:22 final size:22
Alignment explanation
Indices: 42588633--42588691 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
42588623 TATTCTGATC
*
42588633 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
42588655 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
42588677 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
42588692 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:42591590 original size:27 final size:27
Alignment explanation
Indices: 42591549--42591604 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
42591539 ATCTCATATA
* *
42591549 TGTAGGCTAGTATTACTAAAATGCCCT
1 TGTAGGCTAGAATTACTAAAATACCCT
* *
42591576 TGTAGGGTAGAATTACTGAAATACCCT
1 TGTAGGCTAGAATTACTAAAATACCCT
42591603 TG
1 TG
42591605 GTTTACAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.32
Consensus pattern (27 bp):
TGTAGGCTAGAATTACTAAAATACCCT
Found at i:42591616 original size:27 final size:27
Alignment explanation
Indices: 42591586--42591709 Score: 119
Period size: 27 Copynumber: 4.6 Consensus size: 27
42591576 TGTAGGGTAG
* * *
42591586 AATTACTGAAATACCCTTGGTTTACAA
1 AATTACTAAAATACCCCTGATTTACAA
*
42591613 AATTACCAAAATA-CCCTCGA-TTAGCAA
1 AATTACTAAAATACCCCT-GATTTA-CAA
* * *
42591640 AATTACCAAAATACCCCTAATTTGCAA
1 AATTACTAAAATACCCCTGATTTACAA
*
42591667 AATTACTAAAATACCCCCT-ATTTATAA
1 AATTACTAAAATA-CCCCTGATTTACAA
*
42591694 AATTACTGAAATACCC
1 AATTACTAAAATACCC
42591710 TTGTAGTGTA
Statistics
Matches: 82, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
26 9 0.11
27 62 0.76
28 11 0.13
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.28
Consensus pattern (27 bp):
AATTACTAAAATACCCCTGATTTACAA
Found at i:42591746 original size:27 final size:27
Alignment explanation
Indices: 42591611--42592004 Score: 287
Period size: 27 Copynumber: 14.6 Consensus size: 27
42591601 CTTGGTTTAC
* * * * *
42591611 AAAATTACCAAAATACCCTCGATTAGC
1 AAAATTATCGAAATACCCCCGATTTGT
* * ** *
42591638 AAAATTACCAAAATACCCCTAATTTGC
1 AAAATTATCGAAATACCCCCGATTTGT
* * *
42591665 AAAATTA-CTAAAATACCCCCTATTTAT
1 AAAATTATC-GAAATACCCCCGATTTGT
** *
42591692 AAAATTA-CTGAAATACCCTTG-TAGTGT
1 AAAATTATC-GAAATACCCCCGAT-TTGT
* * *
42591719 AGAATTACCGAAATACCCCCAATTTGT
1 AAAATTATCGAAATACCCCCGATTTGT
* *
42591746 AAAATTATAGAAATATCCCCGATTTGT
1 AAAATTATCGAAATACCCCCGATTTGT
** *
42591773 AAAATTATCGAAATACCCTTG-TAGTGT
1 AAAATTATCGAAATACCCCCGAT-TTGT
* * **
42591800 ATAATTATCGAAATACCCTCGATTTAA
1 AAAATTATCGAAATACCCCCGATTTGT
* *
42591827 AAAATTATCGAAATACCCCTGATTTAT
1 AAAATTATCGAAATACCCCCGATTTGT
*
42591854 AAAATTATCGAAATACCCTCGATTTGT
1 AAAATTATCGAAATACCCCCGATTTGT
* ** *
42591881 AAAATTATAGAAATACCCTTG-TGGTGT
1 AAAATTATCGAAATACCCCCGAT-TTGT
* * * *
42591908 AGAATTATCGAAATACCCTCAATTTTT
1 AAAATTATCGAAATACCCCCGATTTGT
**
42591935 AAAATTATCGAAATACCCCTAATTTGT
1 AAAATTATCGAAATACCCCCGATTTGT
* **
42591962 AAAATTATCAAAATA-CCCTTATTGTGT
1 AAAATTATCGAAATACCCCCGATT-TGT
*
42591989 AAAATTACCGAAATAC
1 AAAATTATCGAAATAC
42592005 TCTTGTAGTG
Statistics
Matches: 299, Mismatches: 58, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
26 11 0.04
27 284 0.95
28 4 0.01
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTATCGAAATACCCCCGATTTGT
Found at i:42591888 original size:54 final size:54
Alignment explanation
Indices: 42591675--42592004 Score: 316
Period size: 54 Copynumber: 6.1 Consensus size: 54
42591665 AAAATTACTA
* * * *
42591675 AAATACCCCCT-ATTTATAAAATTA-CTGAAATACCCTTG-TAGTGTAGAATTACCG
1 AAATA-CCCCTGATTTATAAAATTATC-GAAATACCCTCGAT-TTGTAAAATTATCG
** * *
42591729 AAATACCCCCAATTTGTAAAATTATAGAAATATCCC-CGATTTGTAAAATTATCG
1 AAATACCCCTGATTTATAAAATTATCGAAATA-CCCTCGATTTGTAAAATTATCG
* * **
42591783 AAATACCCTTGTAGTGTAT--AATTATCGAAATACCCTCGATTTAAAAAATTATCG
1 AAATACCCCTG-A-TTTATAAAATTATCGAAATACCCTCGATTTGTAAAATTATCG
*
42591837 AAATACCCCTGATTTATAAAATTATCGAAATACCCTCGATTTGTAAAATTATAG
1 AAATACCCCTGATTTATAAAATTATCGAAATACCCTCGATTTGTAAAATTATCG
* * * * * *
42591891 AAATACCCTTG-TGGTGTAGAATTATCGAAATACCCTCAATTTTTAAAATTATCG
1 AAATACCCCTGAT-TTATAAAATTATCGAAATACCCTCGATTTGTAAAATTATCG
* * * * *
42591945 AAATACCCCTAATTTGTAAAATTATCAAAATACCCT-TATTGTGTAAAATTACCG
1 AAATACCCCTGATTTATAAAATTATCGAAATACCCTCGATT-TGTAAAATTATCG
42591999 AAATAC
1 AAATAC
42592005 TCTTGTAGTG
Statistics
Matches: 229, Mismatches: 35, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
52 4 0.02
53 12 0.05
54 204 0.89
55 6 0.03
56 3 0.01
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (54 bp):
AAATACCCCTGATTTATAAAATTATCGAAATACCCTCGATTTGTAAAATTATCG
Found at i:42591899 original size:108 final size:108
Alignment explanation
Indices: 42591721--42592016 Score: 425
Period size: 108 Copynumber: 2.7 Consensus size: 108
42591711 TGTAGTGTAG
* * *
42591721 AATTACCGAAATACCCCCAATTTGTAAAATTATAGAAATATCCC-CGATTTGTAAAATTATCGAA
1 AATTATCGAAATACCCCTAATTTGTAAAATTATCGAAATA-CCCTCGATTTGTAAAATTATCGAA
* *
42591785 ATACCCTTGTAGTGTATAATTATCGAAATACCCTCGATTTAAAA
65 ATACCCTTGTAGTGTAGAATTATCGAAATACCCTCAATTTAAAA
* * *
42591829 AATTATCGAAATACCCCTGATTTATAAAATTATCGAAATACCCTCGATTTGTAAAATTATAGAAA
1 AATTATCGAAATACCCCTAATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATCGAAA
* **
42591894 TACCCTTGTGGTGTAGAATTATCGAAATACCCTCAATTTTTAA
66 TACCCTTGTAGTGTAGAATTATCGAAATACCCTCAATTTAAAA
* * *
42591937 AATTATCGAAATACCCCTAATTTGTAAAATTATCAAAATACCCT-TATTGTGTAAAATTACCGAA
1 AATTATCGAAATACCCCTAATTTGTAAAATTATCGAAATACCCTCGATT-TGTAAAATTATCGAA
*
42592001 ATACTCTTGTAGTGTA
65 ATACCCTTGTAGTGTA
42592017 AAATGATTGG
Statistics
Matches: 167, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
107 6 0.04
108 161 0.96
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.33
Consensus pattern (108 bp):
AATTATCGAAATACCCCTAATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATCGAAA
TACCCTTGTAGTGTAGAATTATCGAAATACCCTCAATTTAAAA
Found at i:42592017 original size:54 final size:54
Alignment explanation
Indices: 42591743--42592020 Score: 321
Period size: 54 Copynumber: 5.1 Consensus size: 54
42591733 ACCCCCAATT
*
42591743 TGTAAAATTATAGAAATATCCC-CGATTTGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATA-CCCTCGATTTGTAAAATTATCGAAATACCCTTGTAG
* ** * *
42591797 TGTATAATTATCGAAATACCCTCGATTTAAAAAATTATCGAAATACCCCTG-ATT
1 TGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTTGTA-G
* * *
42591851 TATAAAATTATCGAAATACCCTCGATTTGTAAAATTATAGAAATACCCTTGTGG
1 TGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTTGTAG
* * * * * *
42591905 TGTAGAATTATCGAAATACCCTCAATTTTTAAAATTATCGAAATACCCCT-AATT
1 TGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTTGTA-G
* * * *
42591959 TGTAAAATTATCAAAATACCCT-TATTGTGTAAAATTACCGAAATACTCTTGTAG
1 TGTAAAATTATCGAAATACCCTCGATT-TGTAAAATTATCGAAATACCCTTGTAG
42592013 TGTAAAAT
1 TGTAAAAT
42592021 GATTGGCATA
Statistics
Matches: 186, Mismatches: 32, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
53 7 0.04
54 178 0.96
55 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (54 bp):
TGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTTGTAG
Found at i:42592352 original size:41 final size:41
Alignment explanation
Indices: 42592283--42592444 Score: 216
Period size: 41 Copynumber: 4.0 Consensus size: 41
42592273 AGGAAGTATA
* **
42592283 TGAGGATCGCATGGTTGCTGGACGACCGTGGATCCACTAAT
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
* *
42592324 TGAGGATCGCATGGTTTCTTGACAACCGTGGATCCACCGAT
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
*
42592365 TGAGGATCGCATGGTTGCTTAACGACCGTGGATCCACCGAT
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
* * * * * *
42592406 TAAGGATTGCATGGTTCCTTAACGACTGTAGATCCACCG
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
42592445 GTGGTTTTTA
Statistics
Matches: 108, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 108 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (41 bp):
TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
Found at i:42593118 original size:27 final size:27
Alignment explanation
Indices: 42593051--42593118 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
42593041 TAAGGCTAAG
* * *
42593051 ATGGGC-TAGGCCCAATTGATTCTGTT
1 ATGGGCTTTGGCCCAAATGATTCTGTA
* *
42593077 ATGGGCTGTGACCCAAATGATAT-TGTA
1 ATGGGCTTTGGCCCAAATGAT-TCTGTA
42593104 ATGGGCTTTGGCCCA
1 ATGGGCTTTGGCCCA
42593119 CGTGTGCTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 6 0.18
27 26 0.79
28 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (27 bp):
ATGGGCTTTGGCCCAAATGATTCTGTA
Found at i:42614414 original size:10 final size:10
Alignment explanation
Indices: 42614399--42614424 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
42614389 GTGATGAATG
42614399 AAATATGGTC
1 AAATATGGTC
42614409 AAATATGGTC
1 AAATATGGTC
42614419 AAATAT
1 AAATAT
42614425 ACATATGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (10 bp):
AAATATGGTC
Found at i:42623526 original size:43 final size:43
Alignment explanation
Indices: 42623465--42623550 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
42623455 TCATATTCAT
42623465 GATCAGCCAATTTTTTTGTAATTGTCTATAGTTTATTGCACTC
1 GATCAGCCAATTTTTTTGTAATTGTCTATAGTTTATTGCACTC
42623508 GATCAGCCAATTTTTTTGTAATTGTCTATAGTTTATTGCACTC
1 GATCAGCCAATTTTTTTGTAATTGTCTATAGTTTATTGCACTC
42623551 TTTCTCTTCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.47
Consensus pattern (43 bp):
GATCAGCCAATTTTTTTGTAATTGTCTATAGTTTATTGCACTC
Found at i:42631465 original size:46 final size:46
Alignment explanation
Indices: 42631390--42631485 Score: 133
Period size: 46 Copynumber: 2.1 Consensus size: 46
42631380 ATTCGGTAAT
* * *
42631390 GCCTCGTACCCTGTTCTGGCCTCGGATACGGGTAAGGGGTGTTACA
1 GCCTCGTACCCTATTCTGGCCTCGAATACGGGTAAGGGGTGGTACA
*
42631436 GCCTCGTACCCTATTCTGGTGC-CGAATACGGGTAAGGGGTGGTACA
1 GCCTCGTACCCTATTCTGG-CCTCGAATACGGGTAAGGGGTGGTACA
42631482 -CCTC
1 GCCTC
42631486 CACTCGCCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
45 4 0.09
46 40 0.89
47 1 0.02
ACGTcount: A:0.17, C:0.27, G:0.31, T:0.25
Consensus pattern (46 bp):
GCCTCGTACCCTATTCTGGCCTCGAATACGGGTAAGGGGTGGTACA
Found at i:42637440 original size:27 final size:28
Alignment explanation
Indices: 42637387--42637445 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
42637377 TTTAGATTCT
*
42637387 TATTTTTTATTTTTAAAATTGACTTATA
1 TATTATTTATTTTTAAAATTGACTTATA
* **
42637415 TATTATTTA-TTTTGAAATTGTTTTATA
1 TATTATTTATTTTTAAAATTGACTTATA
42637442 TATT
1 TATT
42637446 TTATGTTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.63
Consensus pattern (28 bp):
TATTATTTATTTTTAAAATTGACTTATA
Found at i:42637491 original size:24 final size:23
Alignment explanation
Indices: 42637415--42637492 Score: 61
Period size: 25 Copynumber: 3.3 Consensus size: 23
42637405 TTGACTTATA
*
42637415 TATTATTTATTTTGAAAT-TGTTT
1 TATTATTTATTTTAAAATGT-TTT
* ** *
42637438 TATATATTTTATGTTAAGCTCTTTT
1 TAT-TA-TTTATTTTAAAATGTTTT
42637463 T-TTATTTATTTTAAAATGGTTTT
1 TATTATTTATTTTAAAAT-GTTTT
42637486 TATTATT
1 TATTATT
42637493 GTTTGTTTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 9
0.71 0.14 0.15
Matches are distributed among these distances:
22 10 0.24
23 10 0.24
24 8 0.19
25 13 0.31
26 1 0.02
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.64
Consensus pattern (23 bp):
TATTATTTATTTTAAAATGTTTT
Found at i:42639400 original size:14 final size:15
Alignment explanation
Indices: 42639378--42639410 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
42639368 AATTTCAGAT
42639378 TTTTATTTCTTT-TC
1 TTTTATTTCTTTCTC
*
42639392 TTTTCTTTCTTTCTC
1 TTTTATTTCTTTCTC
42639407 TTTT
1 TTTT
42639411 GTTGCTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTATTTCTTTCTC
Found at i:42643518 original size:41 final size:40
Alignment explanation
Indices: 42643461--42643621 Score: 162
Period size: 41 Copynumber: 3.9 Consensus size: 40
42643451 TAAACAGATT
* * *
42643461 CACCGGCATTTTGCCTGCTAGGCTTAAAGCCTGATTCAGTA
1 CACCGGCATTTAGCCTGCTAGACTTAAAGTCTGATT-AGTA
* * * *
42643502 CACCGGCACTTAGCCTGCTAGACATATAGTCTGA-AATGTA
1 CACCGGCATTTAGCCTGCTAGACTTAAAGTCTGATTA-GTA
* *
42643542 TCACCGGCATTTAGCCTGCTAGACTTAAAGTCTGAATTACTT
1 -CACCGGCATTTAGCCTGCTAGACTTAAAGTCTG-ATTAGTA
* * *
42643584 CACCGGCATTAAGCCTGCTAGACGTAACGTCTGTATTA
1 CACCGGCATTTAGCCTGCTAGACTTAAAGTCTG-ATTA
42643622 TATTCAATCA
Statistics
Matches: 99, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 1 0.01
40 3 0.03
41 92 0.93
42 2 0.02
43 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (40 bp):
CACCGGCATTTAGCCTGCTAGACTTAAAGTCTGATTAGTA
Found at i:42651070 original size:41 final size:40
Alignment explanation
Indices: 42651013--42651158 Score: 159
Period size: 41 Copynumber: 3.6 Consensus size: 40
42651003 TAAACAGATT
* * *
42651013 CACCGGCATTTTGCCTGCTAGGCTTAAAGCCTGATTCAGTA
1 CACCGGCATTTAGCCTGCTAGACTTAAAGTCTGATT-AGTA
* * * *
42651054 CACCGGCACTTAGCCTGCTAGACATATAGTCTGA-AATGTA
1 CACCGGCATTTAGCCTGCTAGACTTAAAGTCTGATTA-GTA
* *
42651094 TCACCGGCATTTAGCCTGCTAGACTTAAAGTCTGAATTACTT
1 -CACCGGCATTTAGCCTGCTAGACTTAAAGTCTG-ATTAGTA
*
42651136 CACCGGCATTAAGCCTGCTAGAC
1 CACCGGCATTTAGCCTGCTAGAC
42651159 GTAACTTCTG
Statistics
Matches: 87, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
39 1 0.01
40 3 0.03
41 80 0.92
42 2 0.02
43 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (40 bp):
CACCGGCATTTAGCCTGCTAGACTTAAAGTCTGATTAGTA
Found at i:42655707 original size:33 final size:35
Alignment explanation
Indices: 42655670--42655767 Score: 82
Period size: 33 Copynumber: 2.9 Consensus size: 35
42655660 ATGGTTATAT
42655670 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTACTTAA
* * *
42655703 TTAAA-GTTTACAA-ATAATTAATATTTATTACTTAA
1 TTAAATATTTAAAATATAATT--TATATATTACTTAA
*
42655738 --AAATATTTAAAATTTATATTTCATATATTA
1 TTAAATATTTAAAATATA-ATTT-ATATATTA
42655768 AAATATTAAC
Statistics
Matches: 50, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 15 0.30
34 8 0.16
35 12 0.24
36 3 0.06
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTACTTAA
Found at i:42655757 original size:30 final size:30
Alignment explanation
Indices: 42655718--42655774 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
42655708 GTTTACAAAT
42655718 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
42655748 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
42655775 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:42655965 original size:13 final size:13
Alignment explanation
Indices: 42655947--42655971 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42655937 TTTAAACCAA
42655947 ACTTCTCAAAAGC
1 ACTTCTCAAAAGC
42655960 ACTTCTCAAAAG
1 ACTTCTCAAAAG
42655972 TATTTTTCAA
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:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
ACTTCTCAAAAGC
Found at i:42660818 original size:27 final size:23
Alignment explanation
Indices: 42660764--42660811 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
42660754 GGGAAAAAAG
*
42660764 AATGATGAAATTGTTTGTGCCAT
1 AATGATGAAATTATTTGTGCCAT
42660787 AATGATGAAATTATTTGTGCCAT
1 AATGATGAAATTATTTGTGCCAT
42660810 AA
1 AA
42660812 AATATGAACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (23 bp):
AATGATGAAATTATTTGTGCCAT
Found at i:42665441 original size:31 final size:31
Alignment explanation
Indices: 42665383--42665441 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
42665373 AAACCATAAG
* * *
42665383 TAAATAAATAAATAAAAACTATTAAAAAGTT
1 TAAATAAATAAAAAAAAAATATAAAAAAGTT
42665414 TAAATAAATAAAAAATAAAATA-AAAAAA
1 TAAATAAATAAAAAA-AAAATATAAAAAA
42665442 TGAAATAGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 19 0.79
32 5 0.21
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (31 bp):
TAAATAAATAAAAAAAAAATATAAAAAAGTT
Found at i:42665504 original size:3 final size:3
Alignment explanation
Indices: 42665496--42665741 Score: 80
Period size: 3 Copynumber: 81.3 Consensus size: 3
42665486 CAAAATAAGA
* * *
42665496 AAT AAT AAT AAT AAT AAAT AATT AAT GAT AAT AAA AAT AAT AGT AA-
1 AAT AAT AAT AAT AAT -AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
42665542 AGAA AAT AA- AGAT AA- AATT AAT AAT GAT ACT AACG AAT -GT AAGT
1 A-AT AAT AAT A-AT AAT AA-T AAT AAT AAT AAT AA-T AAT AAT AA-T
* * ** * * *
42665586 AAT AAT AGT AAG AA- AA- AAT AAT GGT AAT AAA AAT AAA AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
42665632 AA- AAGT AGT AAT AAT AAC ACATT AAGT TAT AAT AGT AA- AAT AAT AAT
1 AAT AA-T AAT AAT AAT AAT A-A-T AA-T AAT AAT AAT AAT AAT AAT AAT
** * * * *
42665679 AAT AGC GAT AAC AAT AAT -AT ATT AGAT AAT AAT AGT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
*
42665723 AAT AAT AGT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
42665742 TATTAAATTA
Statistics
Matches: 172, Mismatches: 51, Indels: 40
0.65 0.19 0.15
Matches are distributed among these distances:
2 17 0.10
3 132 0.77
4 22 0.13
5 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:42665514 original size:23 final size:23
Alignment explanation
Indices: 42665488--42665535 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
42665478 AAATGAAGCA
*
42665488 AAATAAGAAATAATAATAATAAT
1 AAATAAGAAATAATAATAAAAAT
** *
42665511 AAATAATTAATGATAATAAAAAT
1 AAATAAGAAATAATAATAAAAAT
42665534 AA
1 AA
42665536 TAGTAAAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (23 bp):
AAATAAGAAATAATAATAAAAAT
Found at i:42665720 original size:23 final size:23
Alignment explanation
Indices: 42665686--42665747 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 23
42665676 AATAATAGCG
*
42665686 ATAACAATAATATATTAGATAATA
1 ATAATAATAATATATTA-ATAATA
*
42665710 ATAGTAA-AATA-A-TAATAATA
1 ATAATAATAATATATTAATAATA
*
42665730 GTAATAATAATATATTAA
1 ATAATAATAATATATTAA
42665748 ATTAGTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
20 11 0.35
21 6 0.19
22 2 0.06
23 7 0.23
24 5 0.16
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.34
Consensus pattern (23 bp):
ATAATAATAATATATTAATAATA
Found at i:42665739 original size:44 final size:44
Alignment explanation
Indices: 42665629--42665747 Score: 143
Period size: 47 Copynumber: 2.6 Consensus size: 44
42665619 TAAAAATAAA
* * *
42665629 AATAA-AAGTAGTAATAATAACACATTAAGTTATAATAGTAAAAT
1 AATAATAA-TAGTAATAATAATATATTAAGTAATAATAGTAAAAT
*
42665673 AATAATAATAGCGATAACAATAATATATT-AGATAATAATAGTAAAAT
1 AATAATAATA--G-TAATAATAATATATTAAG-TAATAATAGTAAAAT
42665720 AATAATAATAGTAATAATAATATATTAA
1 AATAATAATAGTAATAATAATATATTAA
42665748 ATTAGTTAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
44 21 0.33
45 4 0.06
46 3 0.05
47 36 0.56
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.31
Consensus pattern (44 bp):
AATAATAATAGTAATAATAATATATTAAGTAATAATAGTAAAAT
Found at i:42668709 original size:60 final size:59
Alignment explanation
Indices: 42668589--42668725 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
42668579 CAGTGTTAAC
* * *
42668589 TGGGCCTCAGCCCTTATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGCCT-AGCCCATATCAATATTAATCTAGGCCATAGCCCATTACAG-ATCAGAGTATAT
* *
42668650 TGGGCCTAGCCCATATCAGTATTAATCTAGGCCGTAGCCCTATTACA-AGTC-GAGATATAT
1 TGGGCCTAGCCCATATCAATATTAATCTAGGCCATAGCCC-ATTACAGA-TCAGAG-TATAT
* *
42668710 TGGGCCTTGGCCATAT
1 TGGGCCTAGCCCATAT
42668726 TAACACAGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 4 0.06
60 50 0.76
61 12 0.18
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATTAATCTAGGCCATAGCCCATTACAGATCAGAGTATAT
Found at i:42668772 original size:19 final size:20
Alignment explanation
Indices: 42668730--42668772 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
42668720 CCATATTAAC
** *
42668730 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
42668750 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
42668769 ACAG
1 ACAG
42668773 CCTCATATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:42671721 original size:31 final size:31
Alignment explanation
Indices: 42671663--42671721 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
42671653 AAACCATAAG
* * *
42671663 TAAATAAATAAATAAAAACTATTAAAAAGTT
1 TAAATAAATAAAAAAAAAATATAAAAAAGTT
42671694 TAAATAAATAAAAAATAAAATA-AAAAAA
1 TAAATAAATAAAAAA-AAAATATAAAAAA
42671722 TGAAATAGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 19 0.79
32 5 0.21
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (31 bp):
TAAATAAATAAAAAAAAAATATAAAAAAGTT
Found at i:42671785 original size:3 final size:3
Alignment explanation
Indices: 42671777--42671929 Score: 75
Period size: 3 Copynumber: 50.3 Consensus size: 3
42671767 CAAAATAAGA
* * * *
42671777 AAT AAT AAT AAT AAAT AATT AAT GAT AAT AAA AAT AAT AGT AA- AGAA
1 AAT AAT AAT AAT -AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * *
42671824 AAT AA- AGAT AA- AATT AAT AAT GAT ACT AACG AAT -AT AAGT AAT AAT
1 AAT AAT A-AT AAT AA-T AAT AAT AAT AAT AA-T AAT AAT AA-T AAT AAT
* * * * *
42671870 AGT AAA AAA AAT AAT -AT ATT AGAT AAT AAT ATT AA- AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
*
42671914 AAT AGT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
42671930 TATTAAATTA
Statistics
Matches: 113, Mismatches: 23, Indels: 28
0.69 0.14 0.17
Matches are distributed among these distances:
2 10 0.09
3 86 0.76
4 17 0.15
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:42671794 original size:20 final size:19
Alignment explanation
Indices: 42671768--42671813 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
42671758 TAAATGAAAC
42671768 AAAATAAGAAATAATAATA
1 AAAATAAGAAATAATAATA
** *
42671787 ATAAATAATTAATGATAATA
1 A-AAATAAGAAATAATAATA
42671807 AAAATAA
1 AAAATAA
42671814 TAGTAAAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (19 bp):
AAAATAAGAAATAATAATA
Found at i:42673012 original size:7 final size:7
Alignment explanation
Indices: 42673000--42673028 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
42672990 GTAATGGGTT
42673000 GTATTGG
1 GTATTGG
42673007 GTATTGG
1 GTATTGG
42673014 GTATTGG
1 GTATTGG
42673021 GTATTGG
1 GTATTGG
42673028 G
1 G
42673029 GTAGTGGGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.45, T:0.41
Consensus pattern (7 bp):
GTATTGG
Found at i:42676130 original size:16 final size:17
Alignment explanation
Indices: 42676103--42676134 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
42676093 TTTTTAAATT
42676103 AAAATGATAAGAGGAGA
1 AAAATGATAAGAGGAGA
42676120 AAAATGA-AAGAGGAG
1 AAAATGATAAGAGGAG
42676135 TATATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.59, C:0.00, G:0.31, T:0.09
Consensus pattern (17 bp):
AAAATGATAAGAGGAGA
Found at i:42677594 original size:19 final size:19
Alignment explanation
Indices: 42677572--42677615 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
42677562 AAAATTTTAC
42677572 TTTT-TCTGAAAAATATAAT
1 TTTTATCTGAAAAATAT-AT
* *
42677591 TTTTATTTGAAAATTATAT
1 TTTTATCTGAAAAATATAT
42677610 TTTTAT
1 TTTTAT
42677616 TTTTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTTATCTGAAAAATATAT
Found at i:42677616 original size:19 final size:20
Alignment explanation
Indices: 42677578--42677617 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
42677568 TTACTTTTTC
42677578 TGAAAAATATAATTTTTATT
1 TGAAAAATATAATTTTTATT
*
42677598 TGAAAATTAT-ATTTTTATT
1 TGAAAAATATAATTTTTATT
42677617 T
1 T
42677618 TTAAAAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TGAAAAATATAATTTTTATT
Found at i:42680729 original size:65 final size:67
Alignment explanation
Indices: 42680601--42680740 Score: 180
Period size: 65 Copynumber: 2.1 Consensus size: 67
42680591 GGTTATTTTT
* ** *
42680601 GTTATT-TTATTAGTAAAATTAATTATTATTATTATTATTATATTTTCTTTTTGTATTTACTTAT
1 GTTATTATTATTACTAAAATTAATTATTATTATTACCACTATATTTTCTTTTTGTATTTACTTAT
42680665 AC
66 AC
*
42680667 GTTATTATTATTACT-AATTTAA-TATTATTATTACCACTATTATTTTCTTTTT-TATTTACTTA
1 GTTATTATTATTACTAAAATTAATTATTATTATTACCACTA-TATTTTCTTTTTGTATTTACTTA
**
42680729 TTG
65 TAC
42680732 GTTATTATT
1 GTTATTATT
42680741 TTCATATTAT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
65 34 0.52
66 24 0.37
67 7 0.11
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (67 bp):
GTTATTATTATTACTAAAATTAATTATTATTATTACCACTATATTTTCTTTTTGTATTTACTTAT
AC
Found at i:42681126 original size:22 final size:22
Alignment explanation
Indices: 42681066--42681133 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
42681056 TATTATTGTC
*
42681066 ATTCATATTAATGCC-TTTATT
1 ATTCATATTAATGCCATTTTTT
* **
42681087 ATT-ATTATTATTATCATTTTTT
1 ATTCA-TATTAATGCCATTTTTT
* *
42681109 ATTCATATTAGTGCCATTGTTT
1 ATTCATATTAATGCCATTTTTT
42681131 ATT
1 ATT
42681134 ATTTTATATT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
20 1 0.03
21 10 0.28
22 24 0.67
23 1 0.03
ACGTcount: A:0.26, C:0.10, G:0.06, T:0.57
Consensus pattern (22 bp):
ATTCATATTAATGCCATTTTTT
Found at i:42692953 original size:44 final size:45
Alignment explanation
Indices: 42692887--42693018 Score: 167
Period size: 44 Copynumber: 2.9 Consensus size: 45
42692877 AGTCATCATG
* *
42692887 GCGAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCA
1 GCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACA
* * *
42692932 -CTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATA
1 GCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACA
* * * *
42692976 GCGAATCTCATTTCCCTGAAGTTGCAGTGGAACAAGATTAAAG
1 GCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGC-AGATTAAAG
42693019 TAATAAATAA
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
44 39 0.53
45 27 0.36
46 8 0.11
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (45 bp):
GCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACA
Found at i:42693163 original size:44 final size:44
Alignment explanation
Indices: 42693078--42693188 Score: 132
Period size: 44 Copynumber: 2.5 Consensus size: 44
42693068 ATCTACCATA
* ** * *
42693078 ACAAGTCTTATCTCCCTGAAGTTGTAGTGAAGCAGACTAAAATT
1 ACAAGTCTTATCTCCCTAAAGTTACAGCGAAGCAGACTAAAACT
* * * *
42693122 ACAAATCTTATATCCCTAAAGTTACAGCGAAGTAGATTAAAACT
1 ACAAGTCTTATCTCCCTAAAGTTACAGCGAAGCAGACTAAAACT
*
42693166 ACAAGTCTTATCTCTCTAAAGTT
1 ACAAGTCTTATCTCCCTAAAGTT
42693189 GCAGTGGAGT
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.31
Consensus pattern (44 bp):
ACAAGTCTTATCTCCCTAAAGTTACAGCGAAGCAGACTAAAACT
Found at i:42694510 original size:3 final size:3
Alignment explanation
Indices: 42694502--42694588 Score: 77
Period size: 3 Copynumber: 28.7 Consensus size: 3
42694492 TAATTAATTA
** * *
42694502 ATT ATT ATT ATT ATT AAC A-T ATC ATT ATT ATT CTT ATT ATGT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
* * **
42694547 ATT ATT ACT ATTT ATT TTT ATT ACC ATT ATT ATT ATT ATT AT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
42694589 ATTTTCTTTT
Statistics
Matches: 66, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
2 1 0.02
3 60 0.91
4 5 0.08
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:42695077 original size:40 final size:40
Alignment explanation
Indices: 42695001--42695077 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
42694991 TATTATTGTC
* *
42695001 ATTCATATTAATGCCTTTATTATTATTATTATATTTTTTT
1 ATTCATATTAATGCATTTATTATTATTATTACATTTTTTT
* * *
42695041 ATTCATATTAGTGTCATTTTTTATTCTT-TTACATTTT
1 ATTCATATTAATG-CATTTATTATTATTATTACATTTT
42695078 ACTACAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 20 0.65
41 11 0.35
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.62
Consensus pattern (40 bp):
ATTCATATTAATGCATTTATTATTATTATTACATTTTTTT
Found at i:42699645 original size:52 final size:52
Alignment explanation
Indices: 42699506--42699663 Score: 273
Period size: 52 Copynumber: 3.1 Consensus size: 52
42699496 GAACCCAATT
*
42699506 ACATGTATCGCATCCATTATGAACTTGGACAAACTCAACGAGCTCGGATGCC
1 ACATGTATCGCATCCATTATGAACTCGGACAAACTCAACGAGCTCGGATGCC
* *
42699558 ACATGTATC-CATCCATTATGAACTCAGACCAACTCAACGAGCTCGGATGCC
1 ACATGTATCGCATCCATTATGAACTCGGACAAACTCAACGAGCTCGGATGCC
*
42699609 ACATGTATCGCATCCATTATGAACTCGGACTAACTCAACGAGCTCGGATGCC
1 ACATGTATCGCATCCATTATGAACTCGGACAAACTCAACGAGCTCGGATGCC
42699661 ACA
1 ACA
42699664 AACAATCATG
Statistics
Matches: 100, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
51 48 0.48
52 52 0.52
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (52 bp):
ACATGTATCGCATCCATTATGAACTCGGACAAACTCAACGAGCTCGGATGCC
Found at i:42700062 original size:24 final size:24
Alignment explanation
Indices: 42700029--42700074 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 24
42700019 TCATGTTTTT
42700029 CTTGATTTA-TAATGCCAAAATTTAA
1 CTTGATTTATTAAT--CAAAATTTAA
42700054 CTTG-TTTATTAATCAAAATTT
1 CTTGATTTATTAATCAAAATTT
42700075 TCAAATCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 8 0.40
24 4 0.20
25 8 0.40
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.46
Consensus pattern (24 bp):
CTTGATTTATTAATCAAAATTTAA
Found at i:42702871 original size:49 final size:49
Alignment explanation
Indices: 42702799--42702896 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
42702789 ATAAGGATAG
42702799 AACCTTGGATTGTTTTTTATTTCACTAGGAGTTTACTCATCAGGTAATC
1 AACCTTGGATTGTTTTTTATTTCACTAGGAGTTTACTCATCAGGTAATC
42702848 AACCTTGGATTGTTTTTTATTTCACTAGGAGTTTACTCATCAGGTAATC
1 AACCTTGGATTGTTTTTTATTTCACTAGGAGTTTACTCATCAGGTAATC
42702897 TAATAATTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.43
Consensus pattern (49 bp):
AACCTTGGATTGTTTTTTATTTCACTAGGAGTTTACTCATCAGGTAATC
Found at i:42702919 original size:49 final size:49
Alignment explanation
Indices: 42702817--42702920 Score: 113
Period size: 49 Copynumber: 2.1 Consensus size: 49
42702807 ATTGTTTTTT
** * * ***
42702817 ATTTCACTAGGAGTTTACTCATCAGGTAATCAACCTTGGATTGTTTTTT
1 ATTTCACTAGGAGTTTACTCATCAGGTAATCAAAATTGAATTGTATACA
42702866 ATTTCACTAGGAGTTTACTCATCAGGTAATCTAATAATT-AATT-TATACA
1 ATTTCACTAGGAGTTTACTCATCAGGTAATC-AA-AATTGAATTGTATACA
42702915 ATTTCA
1 ATTTCA
42702921 AAATAGCTCT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
49 39 0.85
50 5 0.11
51 2 0.04
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.41
Consensus pattern (49 bp):
ATTTCACTAGGAGTTTACTCATCAGGTAATCAAAATTGAATTGTATACA
Found at i:42710188 original size:13 final size:13
Alignment explanation
Indices: 42710166--42710198 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
42710156 GCCGTGTGTC
42710166 ACACACGGCCAAG
1 ACACACGGCCAAG
*
42710179 ACACATGGCCAAG
1 ACACACGGCCAAG
42710192 ACACACG
1 ACACACG
42710199 CTCGTGTGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.36, G:0.21, T:0.03
Consensus pattern (13 bp):
ACACACGGCCAAG
Found at i:42739687 original size:25 final size:25
Alignment explanation
Indices: 42739659--42739708 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
42739649 AATTTTCTTC
* **
42739659 TAAATTTTAATTTTATTTAATTATT
1 TAAATTTTAAATTTATCGAATTATT
42739684 TAAATTTTAAATTTATCGAATTATT
1 TAAATTTTAAATTTATCGAATTATT
42739709 AATAGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (25 bp):
TAAATTTTAAATTTATCGAATTATT
Found at i:42754927 original size:46 final size:46
Alignment explanation
Indices: 42754804--42755087 Score: 240
Period size: 47 Copynumber: 6.4 Consensus size: 46
42754794 ATTGATGTAC
* *
42754804 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTG
1 AAGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* * *
42754850 AAAGTATATATATGTGATAGGGCTGGA-GGCCAATGTGATGAATGTG
1 -AAGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
**
42754896 AAGTATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 AAGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* * * *
42754942 AACATGTGTATGTGTGATAAGGCCGAATGGCCAA--TG-TGAATGTG
1 AA-GTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* * * *
42754986 AA--CTGTGTATGTG-GAA-G-CG-AT-GCC-ATGTGATGAATGTG
1 AAGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* * *
42755024 ACA-T-GATATATGAGAT-A-GCCGAATGGCCAATGTGATGGATGTGG
1 A-AGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-G
* *
42755068 AAGTGTATAAATGTGATAAG
1 AAGTATATATATGTGATAAG
42755088 TCCCGAAGGG
Statistics
Matches: 195, Mismatches: 25, Indels: 34
0.77 0.10 0.13
Matches are distributed among these distances:
35 1 0.01
36 3 0.02
37 4 0.02
38 11 0.06
39 10 0.05
40 4 0.02
41 10 0.05
42 3 0.02
43 13 0.07
44 13 0.07
45 32 0.16
46 41 0.21
47 50 0.26
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.27
Consensus pattern (46 bp):
AAGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
Found at i:42758266 original size:40 final size:39
Alignment explanation
Indices: 42758182--42758366 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
42758172 TCGAATGATG
* * * *
42758182 TCCGGGCTAAGTCTCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTC-CGAAGGCATTTGTGC-GAGTTACTAAA
* * *
42758222 TCCGGACTAAGATCCGAAGGTATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
42758262 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
42758301 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
42758342 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
42758367 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 34 0.27
40 79 0.64
41 11 0.09
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42758388 original size:79 final size:79
Alignment explanation
Indices: 42758235--42758401 Score: 205
Period size: 79 Copynumber: 2.1 Consensus size: 79
42758225 GGACTAAGAT
* * **
42758235 CCGAAGGTATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
42758300 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
42758314 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
42758377 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
42758393 CCGAAGGCA
1 CCGAAGGCA
42758402 CGTGATTCAG
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 50 0.66
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:42766379 original size:79 final size:81
Alignment explanation
Indices: 42766243--42766425 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
42766233 TCGAATGATG
* *
42766243 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
42766307 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
42766322 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
42766384 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
42766402 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
42766426 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:42766441 original size:40 final size:40
Alignment explanation
Indices: 42766244--42766427 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
42766234 CGAATGATGT
* * * *
42766244 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
42766284 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
42766324 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
42766362 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
42766403 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
42766428 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:42766449 original size:79 final size:79
Alignment explanation
Indices: 42766296--42766450 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
42766286 GGACTAAGAT
* **
42766296 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
42766361 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
42766375 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
42766438 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
42766451 ATTCCAAAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 41 0.61
80 24 0.36
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:42769170 original size:12 final size:12
Alignment explanation
Indices: 42769153--42769187 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
42769143 TCACGAAAAA
42769153 GCTCGTTTATTG
1 GCTCGTTTATTG
42769165 GCTCGTTTATTG
1 GCTCGTTTATTG
* *
42769177 ACTTGTTTATT
1 GCTCGTTTATT
42769188 TATTAATGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.54
Consensus pattern (12 bp):
GCTCGTTTATTG
Found at i:42769347 original size:4 final size:4
Alignment explanation
Indices: 42769338--42769367 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
42769328 CTAAACAATA
42769338 TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TA
42769368 GTTATTTTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:42769450 original size:23 final size:23
Alignment explanation
Indices: 42769417--42769481 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
42769407 ATCATGTTCA
*
42769417 ATTATATGTTCATGAATATATTTG
1 ATTA-ATGTTCATGAACATATTTG
* *
42769441 TTTAATGTTCGTGAACATATTTG
1 ATTAATGTTCATGAACATATTTG
*
42769464 ATTAA-GTTAAATGAACAT
1 ATTAATGTT-CATGAACAT
42769482 GTTCTTGAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 3 0.09
23 28 0.82
24 3 0.09
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (23 bp):
ATTAATGTTCATGAACATATTTG
Found at i:42775141 original size:182 final size:182
Alignment explanation
Indices: 42774834--42775200 Score: 734
Period size: 182 Copynumber: 2.0 Consensus size: 182
42774824 TTAACCATAA
42774834 TAATACTAATAACGGACTCAAGGTATGAAGGAACTCACTAGAAATCTTCACTTAGAGCTTTCCTA
1 TAATACTAATAACGGACTCAAGGTATGAAGGAACTCACTAGAAATCTTCACTTAGAGCTTTCCTA
42774899 CTTAATGAGTTATTTTCCTTTAGCACTAGGACCTTCTTTCGTATCTTTGGCTTAAATAATCAAAT
66 CTTAATGAGTTATTTTCCTTTAGCACTAGGACCTTCTTTCGTATCTTTGGCTTAAATAATCAAAT
42774964 AACTTCTTTAAATATAATAAAAACCAAAACTTAATGAAATAACATGAATCAG
131 AACTTCTTTAAATATAATAAAAACCAAAACTTAATGAAATAACATGAATCAG
42775016 TAATACTAATAACGGACTCAAGGTATGAAGGAACTCACTAGAAATCTTCACTTAGAGCTTTCCTA
1 TAATACTAATAACGGACTCAAGGTATGAAGGAACTCACTAGAAATCTTCACTTAGAGCTTTCCTA
42775081 CTTAATGAGTTATTTTCCTTTAGCACTAGGACCTTCTTTCGTATCTTTGGCTTAAATAATCAAAT
66 CTTAATGAGTTATTTTCCTTTAGCACTAGGACCTTCTTTCGTATCTTTGGCTTAAATAATCAAAT
42775146 AACTTCTTTAAATATAATAAAAACCAAAACTTAATGAAATAACATGAATCAG
131 AACTTCTTTAAATATAATAAAAACCAAAACTTAATGAAATAACATGAATCAG
42775198 TAA
1 TAA
42775201 GCATGCAAAT
Statistics
Matches: 185, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
182 185 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.33
Consensus pattern (182 bp):
TAATACTAATAACGGACTCAAGGTATGAAGGAACTCACTAGAAATCTTCACTTAGAGCTTTCCTA
CTTAATGAGTTATTTTCCTTTAGCACTAGGACCTTCTTTCGTATCTTTGGCTTAAATAATCAAAT
AACTTCTTTAAATATAATAAAAACCAAAACTTAATGAAATAACATGAATCAG
Found at i:42776025 original size:18 final size:18
Alignment explanation
Indices: 42775999--42776037 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
42775989 AGTTTATCTA
42775999 CTATATAAATCATGTTTT
1 CTATATAAATCATGTTTT
*
42776017 CTATCTAAATCATGTTTT
1 CTATATAAATCATGTTTT
42776035 CTA
1 CTA
42776038 ACCTTGTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (18 bp):
CTATATAAATCATGTTTT
Found at i:42778788 original size:28 final size:29
Alignment explanation
Indices: 42778756--42778810 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
42778746 TCGAAATACT
*
42778756 GATA-TCATGGCCCGAAGCCAAATCAGCC
1 GATATTCATGGCCCAAAGCCAAATCAGCC
**
42778784 GATATTCATGGCTTAAAGCCAAATCAG
1 GATATTCATGGCCCAAAGCCAAATCAG
42778811 TATAACTCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (29 bp):
GATATTCATGGCCCAAAGCCAAATCAGCC
Found at i:42780128 original size:20 final size:20
Alignment explanation
Indices: 42780103--42780173 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
42780093 AAACACAGTA
42780103 AATATATTTATGTTTAATAT
1 AATATATTTATGTTTAATAT
* * *
42780123 AATATATTAGTTCCAT-CTTCATAA
1 AATATA-T--TT--ATGTTTAATAT
42780147 AATATATTTATGTTTAATAT
1 AATATATTTATGTTTAATAT
42780167 AATATAT
1 AATATAT
42780174 CAGTTCCATC
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
19 2 0.05
20 18 0.46
21 3 0.08
23 3 0.08
24 11 0.28
25 2 0.05
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (20 bp):
AATATATTTATGTTTAATAT
Found at i:42780129 original size:22 final size:22
Alignment explanation
Indices: 42780104--42780173 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
42780094 AACACAGTAA
42780104 ATATATTTATGTTTAATATAAT
1 ATATATTTATGTTTAATATAAT
* * *
42780126 ATATTAGTTCCAT-CTTCATA-AA-
1 ATA-TA-TT-TATGTTTAATATAAT
42780148 ATATATTTATGTTTAATATAAT
1 ATATATTTATGTTTAATATAAT
42780170 ATAT
1 ATAT
42780174 CAGTTCCATC
Statistics
Matches: 36, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
19 2 0.06
20 7 0.19
21 4 0.11
22 10 0.28
23 4 0.11
24 7 0.19
25 2 0.06
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (22 bp):
ATATATTTATGTTTAATATAAT
Found at i:42780152 original size:44 final size:44
Alignment explanation
Indices: 42780102--42780191 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
42780092 TAAACACAGT
*
42780102 AAATATATTTATGTTTAATATAATATATTAGTTCCATCTTCATA
1 AAATATATTTATGTTTAATATAATATATCAGTTCCATCTTCATA
42780146 AAATATATTTATGTTTAATATAATATATCAGTTCCATCTTCATA
1 AAATATATTTATGTTTAATATAATATATCAGTTCCATCTTCATA
42780190 AA
1 AA
42780192 GCAAAATCAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (44 bp):
AAATATATTTATGTTTAATATAATATATCAGTTCCATCTTCATA
Found at i:42780296 original size:28 final size:30
Alignment explanation
Indices: 42780250--42780317 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 30
42780240 AACTTTGGTC
* *
42780250 CTTCAACTTTTCATGTTTT-TAA-TTAACT
1 CTTCAACTTTTAATGTTTTACAATTTAACT
42780278 CTTCAACTTTTGAAT-TTTTACAATTTAACT
1 CTTCAACTTTT-AATGTTTTACAATTTAACT
42780308 CTTC-ACTTTT
1 CTTCAACTTTT
42780318 CACAAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 15 0.43
29 10 0.29
30 10 0.29
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (30 bp):
CTTCAACTTTTAATGTTTTACAATTTAACT
Found at i:42780328 original size:30 final size:30
Alignment explanation
Indices: 42780272--42780334 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
42780262 ATGTTTTTAA
* **
42780272 TTAACTCTTCAACTTTTGAATTTTTACAAT
1 TTAACTCTTCAACTTTTCAAAATTTACAAT
42780302 TTAACTCTTC-ACTTTTCACAAATTTACAAT
1 TTAACTCTTCAACTTTTCA-AAATTTACAAT
42780332 TTA
1 TTA
42780335 GTCCATTTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.32, C:0.19, G:0.02, T:0.48
Consensus pattern (30 bp):
TTAACTCTTCAACTTTTCAAAATTTACAAT
Found at i:42781502 original size:24 final size:24
Alignment explanation
Indices: 42781470--42781528 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
42781460 TTAAGCTTTT
42781470 AAATTACTTTAGTTTTTTTTATAG
1 AAATTACTTTAGTTTTTTTTATAG
42781494 AAATTACTTTAGTTTTTTTTATAG
1 AAATTACTTTAGTTTTTTTTATAG
42781518 AAATTACTTTA
1 AAATTACTTTA
42781529 TTTAATTGAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.56
Consensus pattern (24 bp):
AAATTACTTTAGTTTTTTTTATAG
Found at i:42797295 original size:30 final size:30
Alignment explanation
Indices: 42797261--42797320 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
42797251 CTTTAATACG
*
42797261 AACTTTAGAAAAATTACATTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
* *
42797291 AACTTTTGCAAAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
42797321 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTAGAAAAATTACACTTTTGCCCCTA
Found at i:42798126 original size:28 final size:28
Alignment explanation
Indices: 42798090--42798145 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
42798080 TTACAACTCT
*
42798090 CCCCCCTTTAAGGATTTTCGTCTTCGAA
1 CCCCCCTTTAAGGATTTTCGTCCTCGAA
42798118 CCCCCCTTTAAGGATTTTCGTCCTCGAA
1 CCCCCCTTTAAGGATTTTCGTCCTCGAA
42798146 AATCTTACCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.34, G:0.14, T:0.34
Consensus pattern (28 bp):
CCCCCCTTTAAGGATTTTCGTCCTCGAA
Found at i:42801694 original size:31 final size:31
Alignment explanation
Indices: 42801635--42801696 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
42801625 TCGAGTCTGC
*
42801635 ACCACTAACTTTTACACTTTAAAATTTTTCT
1 ACCACTAACTTTTACACTCTAAAATTTTTCT
* *
42801666 ACCACTAACTTTTACACTCTGAACTTTTTCT
1 ACCACTAACTTTTACACTCTAAAATTTTTCT
42801697 TTCTCAATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.26, G:0.02, T:0.44
Consensus pattern (31 bp):
ACCACTAACTTTTACACTCTAAAATTTTTCT
Found at i:42802584 original size:21 final size:21
Alignment explanation
Indices: 42802560--42802601 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
42802550 TCATCAGATC
*
42802560 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
42802581 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
42802602 AGGTTGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:42815209 original size:28 final size:28
Alignment explanation
Indices: 42815144--42815271 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
42815134 CATGAGATTG
* * * *
42815144 GCACTAAGCGTGCGGGTTTAAATTGTATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
42815173 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
42815201 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
42815230 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
42815258 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
42815272 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 46 0.52
29 43 0.48
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:42815233 original size:57 final size:57
Alignment explanation
Indices: 42815144--42815271 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
42815134 CATGAGATTG
* *
42815144 GCACTAAGCGTGCGGGTTTAAATTGTATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGTATAGCACTAAGTGTGCAAGTTTGATTATATA
* * *
42815201 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGTATAGCACTAAGTGTGCAAGTTTGATTATATA
*
42815258 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
42815272 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 60 0.94
58 4 0.06
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGTATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:42825696 original size:58 final size:57
Alignment explanation
Indices: 42825615--42825757 Score: 148
Period size: 57 Copynumber: 2.5 Consensus size: 57
42825605 TTCACTATGG
** * *
42825615 AAAGGATTTAGCCCGG-ATGGGTAATCCTAATATAATC-CCTCACGAGCATATGTTACA-
1 AAAGGATTTAGCTTGGAAT-GGTAATCCTAAT-TAAGCTCCTC-CGAGCATACGTTACAT
* * * *
42825672 ATTAGGATTTAGCTTGGAATGGTAAACCTAATTAAGCTCTTCTGAGCATACGTTACAT
1 A-AAGGATTTAGCTTGGAATGGTAATCCTAATTAAGCTCCTCCGAGCATACGTTACAT
*
42825730 AAAGGATTTAGCTTGGACTGGTAATCCT
1 AAAGGATTTAGCTTGGAATGGTAATCCT
42825758 GTAATACGAT
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
57 42 0.59
58 27 0.38
59 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (57 bp):
AAAGGATTTAGCTTGGAATGGTAATCCTAATTAAGCTCCTCCGAGCATACGTTACAT
Found at i:42829237 original size:37 final size:37
Alignment explanation
Indices: 42829187--42829265 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
42829177 TTATTACGAA
* * *
42829187 GTCTTACCCGGACATAATCTCCACACGAAGTTATCAG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
* *
42829224 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
42829261 GTCTT
1 GTCTT
42829266 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
Found at i:42829457 original size:47 final size:47
Alignment explanation
Indices: 42829384--42829548 Score: 267
Period size: 47 Copynumber: 3.5 Consensus size: 47
42829374 CCCTTCGGGA
* * * * *
42829384 CTTATCACATTTATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42829431 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42829478 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42829525 CTTATCACATATATACACTTTCAC
1 CTTATCACATATATACACTTTCAC
42829549 GTATACACAC
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 109 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:42831993 original size:40 final size:40
Alignment explanation
Indices: 42831961--42832342 Score: 366
Period size: 40 Copynumber: 9.6 Consensus size: 40
42831951 CCAGCATGAT
* * * *
42831961 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
42832001 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
42832041 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
42832081 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
42832121 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * * *
42832161 TGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
* ** * * *
42832202 TGC-CTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
* * * *
42832242 TGC-CTTCGGG-CTTAGCCCGGAATTA-GTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGG-A-TACATCACTAGCACGAA
* **
42832281 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCACGAA
*
42832321 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
42832343 CATCATTCGA
Statistics
Matches: 297, Mismatches: 36, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
38 4 0.01
39 29 0.10
40 243 0.82
41 21 0.07
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:42834249 original size:37 final size:37
Alignment explanation
Indices: 42834199--42834277 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
42834189 TTATTACGAA
* * *
42834199 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
42834236 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
42834273 GTCTT
1 GTCTT
42834278 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:42834474 original size:47 final size:47
Alignment explanation
Indices: 42834396--42834560 Score: 258
Period size: 47 Copynumber: 3.5 Consensus size: 47
42834386 CCCTTCGGGA
* * * * * *
42834396 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42834443 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42834490 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42834537 CTTATCACATATATACACTTTCAC
1 CTTATCACATATATACACTTTCAC
42834561 GTATACACAC
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 108 1.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:42841449 original size:46 final size:45
Alignment explanation
Indices: 42841382--42841556 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 45
42841372 TGTAACCCGC
42841382 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * * *
42841428 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * ***
42841474 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAAACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* *
42841521 CCATAAGTGAACTCGGACTTAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
42841557 ATGCTCAACC
Statistics
Matches: 101, Mismatches: 23, Indels: 10
0.75 0.17 0.07
Matches are distributed among these distances:
45 1 0.01
46 67 0.66
47 31 0.31
48 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:42841502 original size:93 final size:93
Alignment explanation
Indices: 42841390--42841560 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
42841380 GCCCATAAGT
*** *
42841390 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
42841455 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
42841483 GAACTCGGACTCAACTCAACGAGTTCAAACATTCGCATCCATAAGTGAACTCGGACTTAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
42841548 CGAGTTCGGATGC
66 CGAGCTCGGATGC
42841561 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:42845920 original size:27 final size:27
Alignment explanation
Indices: 42845890--42846067 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
42845880 ATATTGAGTC
* * * *
42845890 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
42845917 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
42845944 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
42845972 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
42845999 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
42846026 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
42846053 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42846068 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:42846029 original size:82 final size:81
Alignment explanation
Indices: 42845911--42846066 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
42845901 TGCTATATAA
* *
42845911 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
42845976 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
42845993 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
42846057 CACTTAGTGC
65 CACTTAGTGC
42846067 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:42866769 original size:13 final size:13
Alignment explanation
Indices: 42866748--42866805 Score: 80
Period size: 13 Copynumber: 4.5 Consensus size: 13
42866738 AAATTTTTCC
42866748 AAAGCACTTCTCA
1 AAAGCACTTCTCA
*
42866761 AAAGTACTTCTCA
1 AAAGCACTTCTCA
* *
42866774 CAAGTACTTCTCA
1 AAAGCACTTCTCA
*
42866787 AAAGCACTTTTCA
1 AAAGCACTTCTCA
42866800 AAAGCA
1 AAAGCA
42866806 ATGAAGAACT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.26
Consensus pattern (13 bp):
AAAGCACTTCTCA
Found at i:42876118 original size:40 final size:40
Alignment explanation
Indices: 42876059--42876316 Score: 360
Period size: 40 Copynumber: 6.5 Consensus size: 40
42876049 TGGATGATAA
* * * *
42876059 CCGGGCTAAGTCCCAAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
42876099 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
42876139 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
42876179 CCGGGGTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
42876219 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
42876259 CCGGGCTATGTCTCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
42876299 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
42876317 TACTTGGCTT
Statistics
Matches: 199, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 15 0.08
40 184 0.92
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:42885535 original size:45 final size:44
Alignment explanation
Indices: 42885484--42885612 Score: 136
Period size: 45 Copynumber: 2.9 Consensus size: 44
42885474 GCTGATGGAT
* * *
42885484 AGTAAGCTCTAATGAGCTGAAATGGTAAGCT-TTATCGAGTTGAA
1 AGTAAGCTCTAATGAGCTGAAATAGTAAGCTCATA-CGAGCTGAA
*
42885528 CAGTAAGCTCTATTGAGCT-AAATAGTAAGCTCATACGAGCTGAA
1 -AGTAAGCTCTAATGAGCTGAAATAGTAAGCTCATACGAGCTGAA
* * *
42885572 ATGGTACGCTCTAATGAGCTGAAAACAGTAAGCTCTTACGA
1 A--GTAAGCTCTAATGAGCTG-AAATAGTAAGCTCATACGA
42885613 TCTAGTATAT
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
43 1 0.01
44 19 0.27
45 34 0.48
47 17 0.24
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26
Consensus pattern (44 bp):
AGTAAGCTCTAATGAGCTGAAATAGTAAGCTCATACGAGCTGAA
Found at i:42885582 original size:23 final size:23
Alignment explanation
Indices: 42885482--42885612 Score: 106
Period size: 23 Copynumber: 5.7 Consensus size: 23
42885472 AAGCTGATGG
*
42885482 ATAGTAAGCTCTAATGAGCTGAA
1 ATAGTAAGCTCTAACGAGCTGAA
* * * *
42885505 ATGGTAAGCTTTATCGAGTTG-A
1 ATAGTAAGCTCTAACGAGCTGAA
* **
42885527 ACAGTAAGCTCTATTGAGCT-AA
1 ATAGTAAGCTCTAACGAGCTGAA
42885549 ATAGTAAGCTC-ATACGAGCTGAA
1 ATAGTAAGCTCTA-ACGAGCTGAA
* * *
42885572 ATGGTACGCTCTAATGAGCTGAAA
1 ATAGTAAGCTCTAACGAGCTG-AA
* *
42885596 ACAGTAAGCTCTTACGA
1 ATAGTAAGCTCTAACGA
42885613 TCTAGTATAT
Statistics
Matches: 82, Mismatches: 21, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
21 1 0.01
22 32 0.39
23 34 0.41
24 15 0.18
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (23 bp):
ATAGTAAGCTCTAACGAGCTGAA
Found at i:42889727 original size:56 final size:56
Alignment explanation
Indices: 42889603--42889760 Score: 199
Period size: 56 Copynumber: 2.8 Consensus size: 56
42889593 GAGGGGGTGT
* ** *
42889603 TAGGATATTATTATGGGATATTATCTTTTTAGCAATTTAATTCCTAATGGGATGTTA
1 TAGGATATTATTATGGGATATTATC-TTTTAGCAATTTGATTCCTAATGAAATATTA
* * * * *
42889660 TAGGATGTTATTACGAGATATTATCTCTTAGTAATTTGATTCCTAATGAAATATTA
1 TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATGAAATATTA
* * *
42889716 TATGATATTATTATGGGGTATTATTTTTTAGCAATTTGATTCCTA
1 TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTA
42889761 CGTAACTACT
Statistics
Matches: 84, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
56 62 0.74
57 22 0.26
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (56 bp):
TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATGAAATATTA
Found at i:42896096 original size:18 final size:19
Alignment explanation
Indices: 42896053--42896096 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
42896043 ATATGTCAGC
*
42896053 TTAATAAATATTTTAAAAAT
1 TTAA-AAATATTTCAAAAAT
42896073 TATAAAAATA-TTCAAAAAT
1 T-TAAAAATATTTCAAAAAT
42896092 TTAAA
1 TTAAA
42896097 GTTAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 4 0.18
19 9 0.41
20 6 0.27
21 3 0.14
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAAAAATATTTCAAAAAT
Found at i:42896102 original size:33 final size:34
Alignment explanation
Indices: 42896065--42896131 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
42896055 AATAAATATT
*
42896065 TTAAAAATTATA-AAAATATTC-AAAAATTTAAAG
1 TTAAAAAATATATAAAA-ATTCAAAAAATTTAAAG
42896098 TTAAAAAATATATAAAAATTCATAAAAATTTAAA
1 TTAAAAAATATATAAAAATTCA-AAAAATTTAAA
42896132 AAGAAAGCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 15 0.50
34 4 0.13
35 11 0.37
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (34 bp):
TTAAAAAATATATAAAAATTCAAAAAATTTAAAG
Found at i:42896116 original size:10 final size:9
Alignment explanation
Indices: 42896056--42896133 Score: 58
Period size: 10 Copynumber: 8.8 Consensus size: 9
42896046 TGTCAGCTTA
*
42896056 ATAAATATT
1 ATAAAAATT
*
42896065 TTAAAAATT
1 ATAAAAATT
42896074 ATAAAAA-T
1 ATAAAAATT
42896082 ATTCAAAAATT
1 A-T-AAAAATT
*
42896093 -T-AAAGTT
1 ATAAAAATT
42896100 A-AAAAATAT
1 ATAAAAAT-T
42896109 ATAAAAATT
1 ATAAAAATT
42896118 CATAAAAATT
1 -ATAAAAATT
42896128 -TAAAAA
1 ATAAAAA
42896134 GAAAGCATGA
Statistics
Matches: 56, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
7 5 0.09
8 12 0.21
9 18 0.32
10 20 0.36
11 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:42901380 original size:10 final size:9
Alignment explanation
Indices: 42901362--42901415 Score: 56
Period size: 9 Copynumber: 6.0 Consensus size: 9
42901352 TTTAAAACCA
42901362 TTAAAAATT
1 TTAAAAATT
42901371 TTAAATAATT
1 TTAAA-AATT
*
42901381 TAAAAAATT
1 TTAAAAATT
* *
42901390 AT-AAAATA
1 TTAAAAATT
*
42901398 TTAAAAATA
1 TTAAAAATT
42901407 TTAAAAATT
1 TTAAAAATT
42901416 ATATAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
8 6 0.16
9 23 0.62
10 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
TTAAAAATT
Found at i:42901383 original size:18 final size:17
Alignment explanation
Indices: 42901362--42901415 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
42901352 TTTAAAACCA
*
42901362 TTAAAAATTTTAAATAAT
1 TTAAAAATATTAAA-AAT
42901380 TTAAAAA-ATTATAAAAT
1 TTAAAAATATTA-AAAAT
42901397 ATTAAAAATATTAAAAAT
1 -TTAAAAATATTAAAAAT
42901415 T
1 T
42901416 ATATAAAAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
17 7 0.22
18 21 0.66
19 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAATATTAAAAAT
Found at i:42901404 original size:19 final size:20
Alignment explanation
Indices: 42901364--42901414 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
42901354 TAAAACCATT
* *
42901364 AAAAATT-TTAAATAATTTA
1 AAAAATTATAAAATAATTAA
42901383 AAAAATTATAAAAT-ATTAA
1 AAAAATTATAAAATAATTAA
*
42901402 AAATATTA-AAAAT
1 AAAAATTATAAAAT
42901415 TATATAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 5 0.18
19 18 0.64
20 5 0.18
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATTATAAAATAATTAA
Found at i:42901412 original size:26 final size:27
Alignment explanation
Indices: 42901352--42901418 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
42901342 GGATGTAGTT
* *
42901352 TTTAAAACCATTA-AAAATTTTAAATAA
1 TTTAAAA-AATTATAAAATATTAAATAA
42901379 TTTAAAAAATTATAAAATATTAAA-AA
1 TTTAAAAAATTATAAAATATTAAATAA
42901405 TATT-AAAAATTATA
1 T-TTAAAAAATTATA
42901419 TAAAAGAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
26 17 0.47
27 19 0.53
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (27 bp):
TTTAAAAAATTATAAAATATTAAATAA
Found at i:42908832 original size:53 final size:54
Alignment explanation
Indices: 42908703--42908835 Score: 187
Period size: 56 Copynumber: 2.4 Consensus size: 54
42908693 TCCCAGACAG
*
42908703 GGTCTTAGTCACACACATATATCGGAGTCACATATCAATGCCAACATATTAAACGT
1 GGTCTTACTCACACACATATATCGGAGTCACATATCAAT--CAACATATTAAACGT
* *
42908759 GGTCTTACTCACACACATATATCGGAGTCACATATCGAT-AACGTATTAAACGT
1 GGTCTTACTCACACACATATATCGGAGTCACATATCAATCAACATATTAAACGT
** *
42908812 GGTCTTACTCGTACATATATATCG
1 GGTCTTACTCACACACATATATCG
42908836 ATGCCATGGT
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
53 34 0.48
56 37 0.52
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (54 bp):
GGTCTTACTCACACACATATATCGGAGTCACATATCAATCAACATATTAAACGT
Found at i:42910807 original size:34 final size:33
Alignment explanation
Indices: 42910748--42910845 Score: 110
Period size: 34 Copynumber: 2.9 Consensus size: 33
42910738 GTGTTTGCAT
*
42910748 ACTG-TACTGGAATAGGCTGAA-GCCCAGACTGCC
1 ACTGATACTGTAATAGGC--AAGGCCCAGACTGCC
* *
42910781 ACTGATACTGTAATGAGGTAAGGCCCAGACTACC
1 ACTGATACTGTAAT-AGGCAAGGCCCAGACTGCC
* *
42910815 ATTGATACTGTAATAGGCCAGGCCCAGACTG
1 ACTGATACTGTAATAGGCAAGGCCCAGACTG
42910846 TTACTGCTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
33 20 0.36
34 32 0.58
35 3 0.05
ACGTcount: A:0.30, C:0.24, G:0.26, T:0.20
Consensus pattern (33 bp):
ACTGATACTGTAATAGGCAAGGCCCAGACTGCC
Found at i:42930337 original size:46 final size:45
Alignment explanation
Indices: 42930287--42930456 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 45
42930277 TTGAGCATCT
*
42930287 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG-TC
* * * *
42930333 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTC
* * *
42930379 TGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCC
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
*
42930425 CAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
42930457 GGGGCGGCTT
Statistics
Matches: 102, Mismatches: 13, Indels: 18
0.77 0.10 0.14
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 57 0.56
47 26 0.25
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
Found at i:42930440 original size:93 final size:93
Alignment explanation
Indices: 42930281--42930451 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
42930271 GGATGGTTGA
* * *
42930281 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTCGAACTCGTTGAGT
1 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
42930346 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
42930374 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAA-CTCGTTGAG
42930438 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
42930452 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 3 0.04
93 69 0.96
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:42930718 original size:19 final size:20
Alignment explanation
Indices: 42930681--42930718 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
42930671 ATAAGGTGGT
42930681 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
42930701 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
42930719 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:42930906 original size:48 final size:48
Alignment explanation
Indices: 42930831--42931061 Score: 222
Period size: 48 Copynumber: 4.9 Consensus size: 48
42930821 TTCACTGTAG
* ** *
42930831 GATGCCAATGCCATATCCTGGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * ** *
42930879 AATGCCAATGCCATGTCCCAAACATGGTCTTACAGGGGATCGTAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *
42930927 GATGCTAATGTCATGTCCCAGACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* ** ** ** *
42930975 GATG-C--TG--ATAG-CCTAGTTATGGTCTTACCCGAAATTACATATC
1 GATGCCAATGCCAT-GTCCCAGACATGGTCTTACATGGGATCACATATC
*
42931018 GATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
42931062 CATAACCTTA
Statistics
Matches: 140, Mismatches: 36, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
43 30 0.21
44 2 0.01
45 2 0.01
46 1 0.01
47 1 0.01
48 104 0.74
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:42939162 original size:40 final size:40
Alignment explanation
Indices: 42938976--42939155 Score: 181
Period size: 40 Copynumber: 4.5 Consensus size: 40
42938966 TGATGTTCGG
* * * *
42938976 GCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCG-
1 GCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGA
* * *
42939015 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGG
1 G-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGA
*
42939056 GCTAAG-CTCGAAGGCATTTGTGCGAGTTACTAAATCCGA
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGA
* *
42939095 GTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGA
* *
42939135 GCTATGTCCCGAAGGTATTTG
1 GCTAAGTCCCGAAGGCATTTG
42939156 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
39 34 0.29
40 73 0.62
41 11 0.09
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGA
Found at i:42939178 original size:79 final size:79
Alignment explanation
Indices: 42939024--42939178 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
42939014 GGACTAAGAT
* * **
42939024 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCTCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
42939089 ATCCGAGTTAAGTC
66 ATCCGAGTTAAGTC
* * *
42939103 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGTATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
42939166 TATATCCG-GTTAA
63 TAAATCCGAGTTAA
42939179 ATTCTGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.60
80 24 0.37
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGAGTTAAGTC
Found at i:42942987 original size:56 final size:56
Alignment explanation
Indices: 42942926--42943048 Score: 165
Period size: 56 Copynumber: 2.2 Consensus size: 56
42942916 ATGTGATGTG
** * * * **
42942926 CGAGTAAGACCATGTTTAATACATTGTCATTGATATGTGATTCTGTTATATGTGTA
1 CGAGTAAGACCACATTTAATACATTGGCATCGATATGTGACTCCATTATATGTGTA
* *
42942982 CGAGTAAGACCACATTTAATACATTGGCGTCGATATGTGACTCCATTATATGTGTG
1 CGAGTAAGACCACATTTAATACATTGGCATCGATATGTGACTCCATTATATGTGTA
42943038 CGAGTAAGACC
1 CGAGTAAGACC
42943049 CTGTCTGGGG
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.34
Consensus pattern (56 bp):
CGAGTAAGACCACATTTAATACATTGGCATCGATATGTGACTCCATTATATGTGTA
Found at i:42946569 original size:48 final size:48
Alignment explanation
Indices: 42946498--42946592 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
42946488 ACTGTGATTA
* * *
42946498 ATGATATTTGTGCCTATGTAAGACCATGTCTTGGACATGGCATCGGCG
1 ATGATATGTGTGCCTATATAAGACCATGTCTGGGACATGGCATCGGCG
*
42946546 ATGATATGTGTG-CTAGTATAAGACCATGTCTGGGACATGGCTTCGGC
1 ATGATATGTGTGCCTA-TATAAGACCATGTCTGGGACATGGCATCGGC
42946593 ACTGACATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 3 0.07
48 39 0.93
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (48 bp):
ATGATATGTGTGCCTATATAAGACCATGTCTGGGACATGGCATCGGCG
Found at i:42946613 original size:48 final size:48
Alignment explanation
Indices: 42946516--42946635 Score: 118
Period size: 48 Copynumber: 2.5 Consensus size: 48
42946506 TGTGCCTATG
* * **
42946516 TAAGACCATGTCTTGGACATGGCATCGGCGATGATATGTGTGCTAGTA
1 TAAGACCATGTCTGGGACATGGCATCGGCGATGACATGTGACCTAGTA
* *
42946564 TAAGACCATGTCTGGGACATGGCTTCGGC-ACTGACAT-TAGACCTTGTA
1 TAAGACCATGTCTGGGACATGGCATCGGCGA-TGACATGT-GACCTAGTA
* * * *
42946612 TAAGACTATATCCGGGATATGGCA
1 TAAGACCATGTCTGGGACATGGCA
42946636 ATGATATGTG
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
47 2 0.03
48 57 0.97
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCGATGACATGTGACCTAGTA
Found at i:42952891 original size:450 final size:450
Alignment explanation
Indices: 42952024--42952925 Score: 1554
Period size: 450 Copynumber: 2.0 Consensus size: 450
42952014 TGGCTGAAAC
42952024 TTGCATGGCGAAACCATGTCTAAGGTTTTTCAAGCTTCCAAGCTCGATTGCAAGTCCGTTCTAGC
1 TTGCATGGCGAAACCATGTCTAAGGTTTTTCAAGCTTCCAAGCTCGATTGCAAGTCCGTTCTAGC
* *
42952089 CCCGTTTTTAATGATTTTTATGTTTTTACAATCCCCGTAACAAGATCTATTTATTTCTTCCATTA
66 CCCGTTTTTAATGATTTTTATGTTTTTACAATCCCCGTAACAAGATCTATCTATTTCTACCATTA
* * * *
42952154 ATTTGAGCTAGGGTTCATGTTTAAAAATTGACCCATGTGTGAGATGCATGTATTTTGATGTCTAA
131 ATTTGAGCTAGGGTTCATGTTTAAAAATTGACCCATGTATAAGATGCATGCATTTTGAAGTCTAA
* * * *
42952219 TGGTAGAGAATGAGTGTTGGGTGTTAAATAAATGACTTTTACTAATCAATTTTCGATGAGAACGT
196 TGGTAGAAAATGAGTGTTGGGTGTTAAAAAAACGACTTTTACTAAGCAATTTTCGATGAGAACGT
42952284 CCGAAAGAACCGTTTTGTAAAAGTTATAAAATTGGTCATAAAAGGATAATTTAGTGGAAATTAGA
261 CCGAAAGAACCGTTTTGTAAAAGTTATAAAATTGGTCATAAAAGGATAATTTAGTGGAAATTAGA
** *
42952349 GGCTGCTATAGCTATGAAAATGATTCAACTAGGCTTAAAATGTACGAAAATTGAATAAAAATCAT
326 GAATGCTATAGCTATGAAAATAATTCAACTAGGCTTAAAATGTACGAAAATTGAATAAAAATCAT
*
42952414 TTTACGAGCCTAGGGGAAAAGGTGTAAATATGACAAAGTTTAAGGGCAGAAATGTAAGTT
391 TTTACGAGCCTAGGGGAAAAGGTGTAAATATGACAAAGTTTAAGGGCAAAAATGTAAGTT
* * *
42952474 TTGCATGGCGAAACCATGTCTAGGGTTTTTCAAGCTTCCAAGGTCGATTGCAAGTCTGTTCTAGC
1 TTGCATGGCGAAACCATGTCTAAGGTTTTTCAAGCTTCCAAGCTCGATTGCAAGTCCGTTCTAGC
* *
42952539 CCTGTTTTTAATGATTTTTATGTTTTTGCAATCCCCGTAACAAGATCTATCTATTTCTACCATTA
66 CCCGTTTTTAATGATTTTTATGTTTTTACAATCCCCGTAACAAGATCTATCTATTTCTACCATTA
*
42952604 ATTTGAGCTAGGGTTCATGTTTAAAAATTGACCTATGTATAAGATGCATGCATTTTGAAGTCTAA
131 ATTTGAGCTAGGGTTCATGTTTAAAAATTGACCCATGTATAAGATGCATGCATTTTGAAGTCTAA
*
42952669 TGGTAGAAAATGAGTGTTGGGTGTTAAAAAAACGACTTTTACTAAGCGATTTTCGATGAGAACGT
196 TGGTAGAAAATGAGTGTTGGGTGTTAAAAAAACGACTTTTACTAAGCAATTTTCGATGAGAACGT
* *
42952734 CTGAAAGGACCGTTTTGTAAAAGTTATAAAATTGGTCATAAAAGGATAATTTAGTGGAAATTAGA
261 CCGAAAGAACCGTTTTGTAAAAGTTATAAAATTGGTCATAAAAGGATAATTTAGTGGAAATTAGA
*
42952799 GAATGCTATTAGCTATGAAAATAATTCGACTAGGCTTAAAATGTACGAAAATTGAATAAAAATCA
326 GAATGCTA-TAGCTATGAAAATAATTCAACTAGGCTTAAAATGTACGAAAATTGAATAAAAATCA
* *
42952864 TTTTACGAGCCTAGGGGAAAA-GTGTAAATATGTCAAAGTTTAAGGGCAAAAATGTAATTT
390 TTTTACGAGCCTAGGGGAAAAGGTGTAAATATGACAAAGTTTAAGGGCAAAAATGTAAGTT
42952924 TT
1 TT
42952926 CCATAATATG
Statistics
Matches: 425, Mismatches: 26, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
450 350 0.82
451 75 0.18
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (450 bp):
TTGCATGGCGAAACCATGTCTAAGGTTTTTCAAGCTTCCAAGCTCGATTGCAAGTCCGTTCTAGC
CCCGTTTTTAATGATTTTTATGTTTTTACAATCCCCGTAACAAGATCTATCTATTTCTACCATTA
ATTTGAGCTAGGGTTCATGTTTAAAAATTGACCCATGTATAAGATGCATGCATTTTGAAGTCTAA
TGGTAGAAAATGAGTGTTGGGTGTTAAAAAAACGACTTTTACTAAGCAATTTTCGATGAGAACGT
CCGAAAGAACCGTTTTGTAAAAGTTATAAAATTGGTCATAAAAGGATAATTTAGTGGAAATTAGA
GAATGCTATAGCTATGAAAATAATTCAACTAGGCTTAAAATGTACGAAAATTGAATAAAAATCAT
TTTACGAGCCTAGGGGAAAAGGTGTAAATATGACAAAGTTTAAGGGCAAAAATGTAAGTT
Found at i:42953545 original size:48 final size:48
Alignment explanation
Indices: 42953474--42953610 Score: 152
Period size: 48 Copynumber: 2.9 Consensus size: 48
42953464 CGCTGTGATT
* * *
42953474 AATGATATTTGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGGC
1 AATGATATGTGTGCCTGTATAAGACCATGTCTGGGACATGGCATCGGC
42953522 AATGATATGTGTG-CTAGTATAAGACCATGTCTGGGACATGGCATCGGC
1 AATGATATGTGTGCCT-GTATAAGACCATGTCTGGGACATGGCATCGGC
* * * * * * *
42953570 ACTGACATGAG-ACCTTCTATAAGACCATATCTGGGATATGG
1 AATGATATGTGTGCC-TGTATAAGACCATGTCTGGGACATGG
42953611 AAAGGATATA
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
47 2 0.03
48 73 0.96
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (48 bp):
AATGATATGTGTGCCTGTATAAGACCATGTCTGGGACATGGCATCGGC
Found at i:42958992 original size:42 final size:43
Alignment explanation
Indices: 42958903--42959016 Score: 103
Period size: 43 Copynumber: 2.7 Consensus size: 43
42958893 CTAGACGTGG
* * *
42958903 TCTTACATGTAATCAAATATCGATGCCACTATTCTAGACAAGG
1 TCTTACATGAAATCAAATATCGATGCCACTATTCCAGACAAGA
* *
42958946 TCTTACATGAAATCATATA-CGATG-C-CTATGTCCCAGACATGA
1 TCTTACATGAAATCAAATATCGATGCCACTAT-T-CCAGACAAGA
42958988 TCTTACACAT-AAATCACAA-ATCGATGCCA
1 TCTT--ACATGAAATCA-AATATCGATGCCA
42959017 ACGTCCCAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
40 4 0.07
41 2 0.04
42 16 0.28
43 24 0.42
44 10 0.18
45 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (43 bp):
TCTTACATGAAATCAAATATCGATGCCACTATTCCAGACAAGA
Found at i:42966486 original size:51 final size:50
Alignment explanation
Indices: 42966366--42966544 Score: 229
Period size: 51 Copynumber: 3.6 Consensus size: 50
42966356 ATCTGATATG
* * *
42966366 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATC-TGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGATCAACAGTCATGGTACA
* *
42966415 CGTAGTAGCCTGCACTTAGTACTACACACGTGATCAA-AGTCATTGAGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGATCAACAGTCA-TG-GTACA
* * *
42966466 CATAGTAGCCTACACTTAGTACTACACATGCGACTTAACAGT-ATGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGA-TCAACAGTCATGGTACA
*
42966516 CGTAGTAGCCTGCACTTAGTACTACACAC
1 CATAGTAGCCTGCACTTAGTACTACACAC
42966545 ATGTATTCAC
Statistics
Matches: 112, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
48 3 0.03
49 33 0.29
50 33 0.29
51 36 0.32
52 4 0.04
53 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGATCAACAGTCATGGTACA
Found at i:42972634 original size:40 final size:41
Alignment explanation
Indices: 42972590--42972687 Score: 146
Period size: 40 Copynumber: 2.4 Consensus size: 41
42972580 CGACTATGAT
*
42972590 TGGCACTAAGTGTGCGATTTAATATAGCTTCGGCTATA-AA
1 TGGCACTAAGTGTGCGATTTAACATAGCTTCGGCTATAGAA
* **
42972630 TGGCACTAAGTGTGCGAGTTGGCATAGCTTCGGCTATAGAA
1 TGGCACTAAGTGTGCGATTTAACATAGCTTCGGCTATAGAA
42972671 -GGCACTAAGTGTGCGAT
1 TGGCACTAAGTGTGCGAT
42972688 ACCAATTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
40 50 0.96
41 2 0.04
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGATTTAACATAGCTTCGGCTATAGAA
Found at i:42977841 original size:27 final size:27
Alignment explanation
Indices: 42977811--42977903 Score: 71
Period size: 27 Copynumber: 3.2 Consensus size: 27
42977801 ATCATCAAGC
42977811 TAGTCTCATATCAATACATCATGTCAT
1 TAGTCTCATATCAATACATCATGTCAT
* * * *
42977838 TAGTCTTAGATGAGCATA-ACTCAATCATCAAGT
1 TAGTCTCATATCA--ATACA-TC-AT-GTC-A-T
*
42977871 TAATCTCATATCAATACATCATGTCAT
1 TAGTCTCATATCAATACATCATGTCAT
42977898 TAGTCT
1 TAGTCT
42977904 TAGATGAGCT
Statistics
Matches: 48, Mismatches: 10, Indels: 16
0.65 0.14 0.22
Matches are distributed among these distances:
27 16 0.33
28 2 0.04
29 7 0.15
30 4 0.08
31 7 0.15
32 2 0.04
33 10 0.21
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.35
Consensus pattern (27 bp):
TAGTCTCATATCAATACATCATGTCAT
Done.