Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 44 of 373
Found at i:12741826 original size:21 final size:21
Alignment explanation
Indices: 12741800--12741848 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
12741790 GCCATTCCAT
*
12741800 TTTTTTTCTTTT-TTCTTTTTC
1 TTTTTTTCTTTTCTT-TTTTCC
12741821 TTTTTTTCTTTTCTTTTTTCC
1 TTTTTTTCTTTTCTTTTTTCC
12741842 TTTTTTT
1 TTTTTTT
12741849 TTTGAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (21 bp):
TTTTTTTCTTTTCTTTTTTCC
Found at i:12741836 original size:26 final size:24
Alignment explanation
Indices: 12741799--12741851 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 24
12741789 AGCCATTCCA
*
12741799 TTTTTTTTCTTTTTTCTTTTTCTTT
1 TTTTTTTTCTTTTTTCCTTTT-TTT
12741824 TTTTCTTTTCTTTTTTCCTTTTTTT
1 TTTT-TTTTCTTTTTTCCTTTTTTT
12741849 TTT
1 TTT
12741852 GAAATAGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 10 0.38
26 16 0.62
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (24 bp):
TTTTTTTTCTTTTTTCCTTTTTTT
Found at i:12746498 original size:27 final size:27
Alignment explanation
Indices: 12746467--12746561 Score: 111
Period size: 27 Copynumber: 3.5 Consensus size: 27
12746457 TTAGTTTACC
* *
12746467 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTCAAATACCCTCGATTTGTA
* *
12746494 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTCAAA-TACCCTCGATTTGTA
* *
12746521 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTCAAATACCCTCGATTTGTA
*
12746548 AAATTACTGAAATA
1 AAATTACTCAAATA
12746562 AGATAGAATT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.05
27 50 0.88
28 4 0.07
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATTACTCAAATACCCTCGATTTGTA
Found at i:12746596 original size:27 final size:27
Alignment explanation
Indices: 12746566--12746627 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
12746556 GAAATAAGAT
12746566 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
12746593 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
12746620 AAAATTAC
1 AGAATTAC
12746628 TGAAATACCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.35
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:12746636 original size:27 final size:27
Alignment explanation
Indices: 12746579--12746692 Score: 104
Period size: 27 Copynumber: 4.2 Consensus size: 27
12746569 ATTACCATTT
* **
12746579 TACCCTCGATTTACAGAATTAC-CATTT
1 TACCCTCGATTTACAAAATTACTCA-AA
*
12746606 TACCCTCGATTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTCAAA
* * *
12746633 TACCCTTGGTTTACAAAATTACCCAAA
1 TACCCTCGATTTACAAAATTACTCAAA
** * **
12746660 TACCCTCGATCAATAAAATTACTGGAA
1 TACCCTCGATTTACAAAATTACTCAAA
12746687 TACCCT
1 TACCCT
12746693 TGTAGGGTAG
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
27 69 0.99
28 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTCAAA
Found at i:12746653 original size:54 final size:54
Alignment explanation
Indices: 12746579--12746694 Score: 135
Period size: 54 Copynumber: 2.1 Consensus size: 54
12746569 ATTACCATTT
* * ** **
12746579 TACCCTCGATTTACAGAATTA-CCATTTTACCCTCGATTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACCCA-AATACCCTCGATCAACAAAATTACTGAAA
* * *
12746633 TACCCTTGGTTTACAAAATTACCCAAATACCCTCGATCAATAAAATTACTGGAA
1 TACCCTTGATTTACAAAATTACCCAAATACCCTCGATCAACAAAATTACTGAAA
12746687 TACCCTTG
1 TACCCTTG
12746695 TAGGGTAGAA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 49 0.94
55 3 0.06
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (54 bp):
TACCCTTGATTTACAAAATTACCCAAATACCCTCGATCAACAAAATTACTGAAA
Found at i:12746706 original size:27 final size:27
Alignment explanation
Indices: 12746676--12746993 Score: 423
Period size: 27 Copynumber: 11.8 Consensus size: 27
12746666 CGATCAATAA
* *
12746676 AATTACTGGAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
12746703 AATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
12746730 AATTA-TCGCAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
12746757 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
12746784 AATTAC-CAGAATACCCCTGTAAGGTAG
1 AATTACTGA-AATACCCCTGTAGGGTAG
*
12746811 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
12746838 AATTA-TCGAAATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
12746865 AATTATTGCAATA-CCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
12746891 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
12746918 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
12746945 AATTA-TCGCAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
12746972 AATTACTGAAATACCCCTGTAG
1 AATTACTGAAATACCCCTGTAG
12746994 CTGGTAAAAT
Statistics
Matches: 261, Mismatches: 21, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
26 24 0.09
27 234 0.90
28 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:12747582 original size:27 final size:27
Alignment explanation
Indices: 12747552--12747920 Score: 524
Period size: 27 Copynumber: 13.7 Consensus size: 27
12747542 TATAATTGAA
12747552 CCTGTAGGGTAGAATTACCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* *
12747579 CCTGTAGGGTAGAAATATCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
12747606 CCTGTAGGGTAGAATTACCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
**
12747633 CCTGTAGGGTAGAATTATTGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* *
12747660 CCTATAGGGTAGAATTACCGCAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
*
12747687 TCTGTAGGGTAGAATTACCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
*
12747714 CCTGTAGGGTAGAATTACCGGAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* * *
12747741 CCTATAGGGTAGAATTACTGGAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
12747768 CCTGTAGGGTAGAATTACCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* * * *
12747795 CCTGTAAGGTTGAATTATCGCAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
*
12747822 CCTGTAGGGTAAAATTACCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
*
12747849 CCTGTAGGGTAGAATTACCAAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* * *
12747876 TCTGTAGGGTGGAATTACCGAGATA-C
1 CCTGTAGGGTAGAATTACCGAAATACC
* * *
12747902 CTTGTGGGGTAAAATTACC
1 CCTGTAGGGTAGAATTACC
12747921 ATTTTGCCCC
Statistics
Matches: 302, Mismatches: 40, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
26 15 0.05
27 287 0.95
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (27 bp):
CCTGTAGGGTAGAATTACCGAAATACC
Found at i:12748390 original size:22 final size:22
Alignment explanation
Indices: 12748365--12748411 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
12748355 GGCTTTATGT
12748365 CAACCTACATATGGCTCTGTGC
1 CAACCTACATATGGCTCTGTGC
*** *
12748387 CAACCTGGTTATGGCTGTGTGC
1 CAACCTACATATGGCTCTGTGC
12748409 CAA
1 CAA
12748412 ACGTATTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (22 bp):
CAACCTACATATGGCTCTGTGC
Found at i:12748590 original size:25 final size:26
Alignment explanation
Indices: 12748562--12748643 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 26
12748552 TGCCACGTAT
* *
12748562 TCTGTT-AAGTGGCTTTGCCACATTA
1 TCTGTTCAAGTGGCTCTGCCACAATA
**
12748587 TCTGTTCTGGTGGCTCTGCCACAATA
1 TCTGTTCAAGTGGCTCTGCCACAATA
* * * *
12748613 TCTGTACCTAGTGACTCTGTCACAATA
1 TCTGT-TCAAGTGGCTCTGCCACAATA
12748640 TCTG
1 TCTG
12748644 ATAACTGAGC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
25 6 0.13
26 20 0.43
27 21 0.45
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (26 bp):
TCTGTTCAAGTGGCTCTGCCACAATA
Found at i:12748813 original size:19 final size:19
Alignment explanation
Indices: 12748791--12748848 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
12748781 TTCTGATTTT
12748791 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
12748810 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
12748822 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
12748841 TGATTCTG
1 TGATTCTG
12748849 ATTCTGATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:12748818 original size:6 final size:6
Alignment explanation
Indices: 12748780--12748905 Score: 98
Period size: 6 Copynumber: 20.3 Consensus size: 6
12748770 TTGCATTCAC
* * *
12748780 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
12748830 -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
12748880 ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
12748906 AATGTTTTTT
Statistics
Matches: 96, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
5 6 0.06
6 73 0.76
7 14 0.15
8 3 0.03
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:12748875 original size:37 final size:31
Alignment explanation
Indices: 12748780--12748891 Score: 170
Period size: 31 Copynumber: 3.6 Consensus size: 31
12748770 TTGCATTCAC
*
12748780 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATACTG
*
12748812 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * *
12748843 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
12748874 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
12748892 ATTCTAGTTC
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
31 69 0.91
32 7 0.09
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:12752132 original size:82 final size:81
Alignment explanation
Indices: 12752016--12752171 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
12752006 AAATTGTACA
* * * * *
12752016 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTTCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
12752080 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
12752097 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
12752162 TGCGAGTTGA
65 TGCGAATTGA
12752172 TTGTATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 18 0.28
82 46 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:12752138 original size:55 final size:52
Alignment explanation
Indices: 12752015--12752168 Score: 166
Period size: 55 Copynumber: 2.9 Consensus size: 52
12752005 TAAATTGTAC
* * *
12752015 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTTCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
12752068 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
12752123 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
12752169 TGATTGTATA
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
53 3 0.04
54 35 0.41
55 46 0.54
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:12752173 original size:27 final size:27
Alignment explanation
Indices: 12752016--12752171 Score: 154
Period size: 27 Copynumber: 5.7 Consensus size: 27
12752006 AAATTGTACA
*
12752016 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* * *
12752043 GCACTAAGTGTTCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
12752070 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
12752097 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
12752125 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
12752152 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
12752172 TTGTATAGCA
Statistics
Matches: 106, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
27 81 0.76
28 25 0.24
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:12752182 original size:27 final size:27
Alignment explanation
Indices: 12752015--12752192 Score: 144
Period size: 27 Copynumber: 6.6 Consensus size: 27
12752005 TAAATTGTAC
*
12752015 AGCACTAAGTGTGCGA-TTCGACTATGT
1 AGCACTAAGTGTGCGAGTT-GATTATGT
* * ** *
12752042 TGCACTAAGTGTTCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGATTATGT
* ** *
12752068 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAGTTGATTATGT
* * *
12752096 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
* *
12752124 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
12752151 GGCACTAAGTGTGCGAGTTGATTGTAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
12752178 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
12752193 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
27 98 0.81
28 23 0.19
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:12752183 original size:82 final size:81
Alignment explanation
Indices: 12752008--12752192 Score: 201
Period size: 82 Copynumber: 2.3 Consensus size: 81
12751998 GCGGGATTAA
* * * * *
12752008 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTTCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
12752073 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
12752089 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
12752153 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
12752171 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
12752193 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 21, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
81 21 0.26
82 60 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:12760028 original size:82 final size:81
Alignment explanation
Indices: 12759912--12760067 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
12759902 AAATTGTACA
* * * *
12759912 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
12759976 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
12759993 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
12760058 TGCGAGTTGA
65 TGCGAATTGA
12760068 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:12760035 original size:55 final size:52
Alignment explanation
Indices: 12759911--12760064 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
12759901 TAAATTGTAC
* *
12759911 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
12759964 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
12760019 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
12760065 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:12760069 original size:27 final size:27
Alignment explanation
Indices: 12759912--12760067 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
12759902 AAATTGTACA
*
12759912 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
12759939 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
12759966 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
12759993 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
12760021 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
12760048 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
12760068 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:12760078 original size:27 final size:27
Alignment explanation
Indices: 12759904--12760088 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
12759894 GCGGGATTAA
*
12759904 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
12759931 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
12759958 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
12759985 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
12760013 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
12760040 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
12760067 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
12760089 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:12760079 original size:82 final size:81
Alignment explanation
Indices: 12759904--12760088 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
12759894 GCGGGATTAA
* * * *
12759904 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
12759969 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
12759985 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
12760049 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
12760067 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
12760089 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:12763893 original size:22 final size:21
Alignment explanation
Indices: 12763863--12763909 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
12763853 TACAAATTAA
12763863 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
12763885 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
12763906 ATCT
1 ATCT
12763910 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:12763915 original size:19 final size:19
Alignment explanation
Indices: 12763880--12763958 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
12763870 AGATTACAAG
12763880 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
12763901 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
12763918 ATCATATCTATGATTGCAT
1 ATCATATCTAAGATTGCAT
12763937 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
12763956 ATC
1 ATC
12763959 CTTAAATATT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.30
19 29 0.54
20 1 0.02
21 8 0.15
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:12765302 original size:21 final size:21
Alignment explanation
Indices: 12765278--12765319 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
12765268 TCAATATCAT
12765278 TATCCAACCA-AATAAATTCAA
1 TATCCAA-CAGAATAAATTCAA
*
12765299 TATCTAACAGAATAAATTCAA
1 TATCCAACAGAATAAATTCAA
12765320 CAAGCTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.52, C:0.19, G:0.02, T:0.26
Consensus pattern (21 bp):
TATCCAACAGAATAAATTCAA
Found at i:12765353 original size:21 final size:21
Alignment explanation
Indices: 12765288--12765353 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
12765278 TATCCAACCA
12765288 AATAAATTCAATATCTAACAG
1 AATAAATTCAATATCTAACAG
* * *
12765309 AATAAATTCAACAAGCTTAAAACAT
1 AATAAATTCAA-TATC-T--AACAG
12765334 AATAAATTCAATATCTAACA
1 AATAAATTCAATATCTAACA
12765354 AATTCAAGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
21 15 0.42
22 2 0.06
23 2 0.06
24 2 0.06
25 15 0.42
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.27
Consensus pattern (21 bp):
AATAAATTCAATATCTAACAG
Found at i:12772128 original size:20 final size:20
Alignment explanation
Indices: 12772080--12772129 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
12772070 TGGAGCAGGA
* *
12772080 ATATCAATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
*
12772100 ATATTGATACCTTAAGAAA-
1 ATATCGATACCTTAAGAAAT
12772119 AGTATCGATAC
1 A-TATCGATAC
12772130 TGGATTTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:12776169 original size:30 final size:30
Alignment explanation
Indices: 12776135--12776195 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
12776125 TCCTTAACTC
12776135 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
12776165 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
12776195 A
1 A
12776196 GCCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:12778115 original size:43 final size:43
Alignment explanation
Indices: 12778068--12778386 Score: 442
Period size: 43 Copynumber: 7.4 Consensus size: 43
12778058 ATATCTTTTA
* * * * * *
12778068 CGTAACCATATATCGATGTCAACGGCCTAGACGTGGTCTTACA
1 CGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACT
* ** *
12778111 CGTAATCACATATCGATGACAACACCCCAGACGTGGCCTTA-T
1 CGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACT
* * *
12778153 ACGTAATCACATATTGATGCCAACATCCCAAACGTGGTCTTACT
1 -CGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACT
*
12778197 CATAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACT
1 CGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACT
* *
12778240 CGTAATCACATATCGATGTCAATGTCCCAGACGTGGTCTTACT
1 CGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACT
* *
12778283 CGTAATCACATATCGATGCCAATGTCCCAGACGTGGTCCTACT
1 CGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACT
* *
12778326 CGTAATCACATATTGATGCCAACGTCCCAGACGTGGTCCTACT
1 CGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACT
12778369 CGTAATCACATATCGATG
1 CGTAATCACATATCGATG
12778387 TCACATATAT
Statistics
Matches: 249, Mismatches: 25, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
43 248 1.00
44 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (43 bp):
CGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACT
Found at i:12779696 original size:14 final size:15
Alignment explanation
Indices: 12779679--12779707 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12779669 TCATGGAAAT
12779679 TTCACACAT-ATAAA
1 TTCACACATAATAAA
12779693 TTCACACATAATAAA
1 TTCACACATAATAAA
12779708 AACTAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:12782097 original size:20 final size:20
Alignment explanation
Indices: 12782072--12782110 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
12782062 ATAATCATAT
12782072 TTTATTAAATAAAAATAATC
1 TTTATTAAATAAAAATAATC
12782092 TTTATTAAATAAAAATAAT
1 TTTATTAAATAAAAATAAT
12782111 ATTATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTATTAAATAAAAATAATC
Found at i:12784372 original size:46 final size:46
Alignment explanation
Indices: 12784219--12784430 Score: 200
Period size: 46 Copynumber: 4.6 Consensus size: 46
12784209 TTAATTGTGT
* * * *
12784219 GCCAGTGTAAGACATGTCTGAGACATGCATCGACCAC-ATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGA
* * * * *
12784265 GCCAGTGTAAGACCATGTCTGGGAGATGGCATTGGCATTGAGACGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGA
*
12784313 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGA
* * *
12784359 GCCAGTGTAAGACATGTTTGGGACATGCATCGG-CTATGAGAT--GT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGA
* *
12784403 GTCAGTGTAAGACCATGTCTAGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
12784431 ATACATCGGC
Statistics
Matches: 137, Mismatches: 22, Indels: 15
0.79 0.13 0.09
Matches are distributed among these distances:
44 11 0.08
45 15 0.11
46 62 0.45
47 26 0.19
48 22 0.16
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGA
Found at i:12785202 original size:225 final size:225
Alignment explanation
Indices: 12784811--12785262 Score: 886
Period size: 225 Copynumber: 2.0 Consensus size: 225
12784801 AGCTCATGAG
12784811 ATATGATTTCAGTTTATGATGCACATTTAGTGAAGATGTAAATAGGTAATTCATGCTTATGAGAA
1 ATATGATTTCAGTTTATGATGCACATTTAGTGAAGATGTAAATAGGTAATTCATGCTTATGAGAA
*
12784876 TGATTTTGTGATGACCTTGTGATTATAGGTCTATACTTATGATGTATGAATATGTAACCTTACCA
66 TGATTTTGTGATGACCTTGTGATTATAGGTCTATACTTATGATGTATGAATACGTAACCTTACCA
*
12784941 ATGTGGTAAAAATGAATTAATATGGTGTGATAAACTTAGTATCGTTAATTTACACTAAAATAGTT
131 ATGTGGTAAAAATGAATTAATATGGTGTGATAAACTTAGTATCGTTAATTTACACTAAAACAGTT
12785006 TTGGACAGCAGCCATAGTCCAACTTTGAAA
196 TTGGACAGCAGCCATAGTCCAACTTTGAAA
12785036 ATATGATTTCAGTTTATGATGCACATTTAGTGAAGATGTAAATAGGTAATTCATGCTTATGAGAA
1 ATATGATTTCAGTTTATGATGCACATTTAGTGAAGATGTAAATAGGTAATTCATGCTTATGAGAA
12785101 TGATTTTGTGATGACCTTGTGATTATAGGTCTATACTTATGATGTATGAATACGTAACCTTACCA
66 TGATTTTGTGATGACCTTGTGATTATAGGTCTATACTTATGATGTATGAATACGTAACCTTACCA
12785166 ATGTGGTAAAAATGAATTAATATGGTGTGATAAACTTAGTATCGTTAATTTACACTAAAACAGTT
131 ATGTGGTAAAAATGAATTAATATGGTGTGATAAACTTAGTATCGTTAATTTACACTAAAACAGTT
12785231 TTGGACAGCAGCCATAGTCCAACTTTGAAA
196 TTGGACAGCAGCCATAGTCCAACTTTGAAA
12785261 AT
1 AT
12785263 CCACCAAAAA
Statistics
Matches: 225, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
225 225 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (225 bp):
ATATGATTTCAGTTTATGATGCACATTTAGTGAAGATGTAAATAGGTAATTCATGCTTATGAGAA
TGATTTTGTGATGACCTTGTGATTATAGGTCTATACTTATGATGTATGAATACGTAACCTTACCA
ATGTGGTAAAAATGAATTAATATGGTGTGATAAACTTAGTATCGTTAATTTACACTAAAACAGTT
TTGGACAGCAGCCATAGTCCAACTTTGAAA
Found at i:12786722 original size:19 final size:19
Alignment explanation
Indices: 12786698--12786746 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
12786688 CGACCTGAAG
*
12786698 ACACGGGCGTGCCAAAGGC
1 ACACGGGCATGCCAAAGGC
12786717 ACACGGGCATGCCAAAGGC
1 ACACGGGCATGCCAAAGGC
12786736 ACACGGGCATG
1 ACACGGGCATG
12786747 TCCCTATGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.29, C:0.31, G:0.35, T:0.06
Consensus pattern (19 bp):
ACACGGGCATGCCAAAGGC
Found at i:12796182 original size:43 final size:44
Alignment explanation
Indices: 12796135--12796270 Score: 117
Period size: 43 Copynumber: 3.2 Consensus size: 44
12796125 TCCCGGATAC
**
12796135 GGTCTTATACGAAATCA-T-ATAACGATGCCAATGTCTTAGACAT
1 GGTCTTATAC-AAATCATTCATAACGATGCCAATGTCCCAGACAT
* *
12796178 GGTC-T-TACACATCATTGCATAATGATGCCAATGTCCCAGACAT
1 GGTCTTATACAAATCATT-CATAACGATGCCAATGTCCCAGACAT
* *
12796221 GGTCTTACT-CATAATC--CCA-ATACAATGCCAATGTCCCAGACAT
1 GGTCTTA-TACA-AATCATTCATA-ACGATGCCAATGTCCCAGACAT
12796264 GGTCTTA
1 GGTCTTA
12796271 CATGTAATCT
Statistics
Matches: 77, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
40 5 0.06
41 4 0.05
42 2 0.03
43 59 0.77
44 1 0.01
45 2 0.03
46 4 0.05
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (44 bp):
GGTCTTATACAAATCATTCATAACGATGCCAATGTCCCAGACAT
Found at i:12796271 original size:43 final size:42
Alignment explanation
Indices: 12796153--12796272 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 42
12796143 ACGAAATCAT
** * **
12796153 ATAACGATGCCAATGTCTTAGACATGGTCTTACACATCATTGC
1 ATAA-GATGCCAATGTCCCAGACATGGTCTTACACATAATCCC
*
12796196 ATAATGATGCCAATGTCCCAGACATGGTCTTACTCATAATCCC
1 ATAA-GATGCCAATGTCCCAGACATGGTCTTACACATAATCCC
12796239 AATACA-ATGCCAATGTCCCAGACATGGTCTTACA
1 -ATA-AGATGCCAATGTCCCAGACATGGTCTTACA
12796273 TGTAATCTCT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
43 63 0.94
44 3 0.04
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (42 bp):
ATAAGATGCCAATGTCCCAGACATGGTCTTACACATAATCCC
Found at i:12801689 original size:24 final size:24
Alignment explanation
Indices: 12801657--12801705 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
12801647 TCTAGGAGAC
*
12801657 CTTAAAACATGCTTGGAAGAGGTT
1 CTTAAAACATGCTTAGAAGAGGTT
12801681 CTTAAAACATGCTTAGAAGAGGTT
1 CTTAAAACATGCTTAGAAGAGGTT
12801705 C
1 C
12801706 GAGACTAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (24 bp):
CTTAAAACATGCTTAGAAGAGGTT
Found at i:12802844 original size:26 final size:26
Alignment explanation
Indices: 12802815--12802922 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
12802805 TGATACAAAT
12802815 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
12802841 TGATAATGGATTAGGTAAATATTTCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
12802867 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
12802893 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
12802919 TGAT
1 TGAT
12802923 TGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:12804435 original size:26 final size:26
Alignment explanation
Indices: 12804405--12804457 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
12804395 TTTATAGTTT
12804405 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
12804431 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
12804457 T
1 T
12804458 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:12809879 original size:26 final size:26
Alignment explanation
Indices: 12809850--12809957 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
12809840 TGATACAAAT
12809850 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
12809876 TGATAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12809902 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12809928 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12809954 TGAT
1 TGAT
12809958 TGGAATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:12819487 original size:51 final size:50
Alignment explanation
Indices: 12819322--12819498 Score: 230
Period size: 51 Copynumber: 3.5 Consensus size: 50
12819312 ACTAGTGACT
* *
12819322 CAAGTGTGGTACTATGTGAAGGCCACTTTGGGAAG-AGATAGCTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGTCA
* * *
12819371 CAAGTGTGGTACTATGTAAAGACCACTTTGTGAACAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAA-GAAGATAGCTTT-GTCA
* *
12819423 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTTGACAA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGTC-A
* * *
12819474 AAAGGGTGGTACTATGTGCAGGCCA
1 CAAGTGTGGTACTATGTGAAGGCCA
12819499 TCGGGTATCC
Statistics
Matches: 111, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
49 31 0.28
50 2 0.02
51 42 0.38
52 36 0.32
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (50 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGTCA
Found at i:12824042 original size:42 final size:42
Alignment explanation
Indices: 12823993--12824079 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
12823983 TATGGCCTTC
12823993 CACGAAATCTCAT-ATCGATGCCATATCCCAGATATGGTCGTA
1 CACGAAATCTCATAAT-GATGCCATATCCCAGATATGGTCGTA
* * *
12824035 CACGAAATCTCATAATGGTGCCATATCCTAGATATGGTCTTA
1 CACGAAATCTCATAATGATGCCATATCCCAGATATGGTCGTA
12824077 CAC
1 CAC
12824080 ATAGTCTTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 39 0.95
43 2 0.05
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (42 bp):
CACGAAATCTCATAATGATGCCATATCCCAGATATGGTCGTA
Found at i:12826142 original size:23 final size:23
Alignment explanation
Indices: 12826115--12826163 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
12826105 TATGAATAAG
12826115 TTCACCATTTTTCGGTACACAAA
1 TTCACCATTTTTCGGTACACAAA
*
12826138 TTCACCATTTTTTGGTACACAAA
1 TTCACCATTTTTCGGTACACAAA
12826161 TTC
1 TTC
12826164 TACCTCAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (23 bp):
TTCACCATTTTTCGGTACACAAA
Found at i:12829462 original size:42 final size:43
Alignment explanation
Indices: 12829354--12829471 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 43
12829344 AGCTCACACA
* *
12829354 ATGCCAGCGTCCCAGACATGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAATCAAATATCG
* * *
12829397 ATGCC-ACTGTCCTAGATAAGGTCTTACATGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGAAATCAAATATCG
* * *
12829439 ATGCCAACATCCCAGACGTGGTCTTACACGAAA
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAA
12829472 ACGCATATAG
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
42 26 0.42
43 36 0.58
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGAAATCAAATATCG
Found at i:12844167 original size:40 final size:40
Alignment explanation
Indices: 12844104--12844194 Score: 125
Period size: 40 Copynumber: 2.3 Consensus size: 40
12844094 TATGCTTGGT
12844104 ACTAAGTGTGCGGTTTAATATAGCTTCGGCTACA-AATGGC
1 ACTAAGTGTGCGGTTTAATATAGCTTCGGCTACATAA-GGC
*
12844144 ACTAAGTGTGCGAGTTGT-A-ATAGCTTCGGCTATATAAGGC
1 ACTAAGTGTGCG-GTT-TAATATAGCTTCGGCTACATAAGGC
12844184 ACTAAGTGTGC
1 ACTAAGTGTGC
12844195 AATACCAACT
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
40 40 0.85
41 6 0.13
42 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (40 bp):
ACTAAGTGTGCGGTTTAATATAGCTTCGGCTACATAAGGC
Found at i:12851709 original size:44 final size:41
Alignment explanation
Indices: 12851596--12851714 Score: 138
Period size: 40 Copynumber: 2.9 Consensus size: 41
12851586 GCGGTTTAAT
***
12851596 ATAGCTTCGGCTAC-AAATGGCACTAAGTGTGCGAATTGTA
1 ATAGCTTCGGCTACTAAATGGCACTAAGTGTGCGAATACCA
12851636 ATAGCTTCGGCTA-TATAA-GGCACTAAGTGTGC-AATACCA
1 ATAGCTTCGGCTACTA-AATGGCACTAAGTGTGCGAATACCA
12851675 ACTTAGCTTCGGCTAACTGAAATGGCACTAAGTGTGCGAA
1 A--TAGCTTCGGCT-ACT-AAATGGCACTAAGTGTGCGAA
12851715 ATCATTTTAG
Statistics
Matches: 67, Mismatches: 3, Indels: 13
0.81 0.04 0.16
Matches are distributed among these distances:
39 5 0.07
40 28 0.42
41 13 0.19
42 1 0.01
43 3 0.04
44 15 0.22
45 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (41 bp):
ATAGCTTCGGCTACTAAATGGCACTAAGTGTGCGAATACCA
Found at i:12851725 original size:44 final size:42
Alignment explanation
Indices: 12851597--12851733 Score: 133
Period size: 40 Copynumber: 3.3 Consensus size: 42
12851587 CGGTTTAATA
** *
12851597 TAGCTTCGGCTAC-AAATGGCACTAAGTGTGCG-AATTGTAA
1 TAGCTTCGGCTACTAAATGGCACTAAGTGTGCGAAATCATAT
*
12851637 TAGCTTCGGCTA-TATAA-GGCACTAAGTGTGC-AATACCA-ACT
1 TAGCTTCGGCTACTA-AATGGCACTAAGTGTGCGAA-ATCATA-T
*
12851678 TAGCTTCGGCTAACTGAAATGGCACTAAGTGTGCGAAATCATTT
1 TAGCTTCGGCT-ACT-AAATGGCACTAAGTGTGCGAAATCATAT
*
12851722 TAGCTTTGGCTA
1 TAGCTTCGGCTA
12851734 ACCCTTACAG
Statistics
Matches: 79, Mismatches: 7, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
40 29 0.37
41 14 0.18
42 1 0.01
43 4 0.05
44 29 0.37
45 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (42 bp):
TAGCTTCGGCTACTAAATGGCACTAAGTGTGCGAAATCATAT
Found at i:12855165 original size:20 final size:19
Alignment explanation
Indices: 12855136--12855211 Score: 64
Period size: 20 Copynumber: 3.9 Consensus size: 19
12855126 ACTTTAAAAT
*
12855136 CAAGTGAAAATGATTTTAA
1 CAAGTCAAAATGATTTTAA
* *
12855155 CCAAGTCAAAATGATTTCAGT
1 -CAAGTCAAAATGATTTTA-A
* **
12855176 CAAGTTAAAACCATTTTAA
1 CAAGTCAAAATGATTTTAA
12855195 CACA-TCAAAATGATTTT
1 CA-AGTCAAAATGATTTT
12855212 CGAATGAGTT
Statistics
Matches: 43, Mismatches: 11, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
19 12 0.28
20 31 0.72
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (19 bp):
CAAGTCAAAATGATTTTAA
Found at i:12855390 original size:21 final size:22
Alignment explanation
Indices: 12855364--12855406 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
12855354 ATTTTTTTGT
12855364 ATCGATA-CTTTCTGAAAAATA
1 ATCGATATCTTTCTGAAAAATA
* *
12855385 ATCGATATCTTTGTTAAAAATA
1 ATCGATATCTTTCTGAAAAATA
12855407 GTACCAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (22 bp):
ATCGATATCTTTCTGAAAAATA
Found at i:12870098 original size:49 final size:49
Alignment explanation
Indices: 12870034--12870271 Score: 287
Period size: 49 Copynumber: 4.8 Consensus size: 49
12870024 TAGCCAAAGC
* * * * * *
12870034 TATCTGGTACGCATAGTAGCCTGCACATATTACTATACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
12870083 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACAAGTGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * * *
12870132 TATCCGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * *
12870182 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * *
12870233 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
12870272 TGCGACCTCA
Statistics
Matches: 163, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 85 0.52
50 42 0.26
51 35 0.21
52 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:12870206 original size:99 final size:101
Alignment explanation
Indices: 12870034--12870271 Score: 293
Period size: 99 Copynumber: 2.4 Consensus size: 101
12870024 TAGCCAAAGC
* * * * * * * ** *
12870034 TATCTGGTACGCATAGTAGCCTGCACATATTACTATACATGCGACC-AATTATCTGGTACACATA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATA
12870098 GTAGCCTGCACTTAGTACTACACAAGTGA-C-CAAT
66 GTAGCCTGCACTTAGTACTACACAAGTGATCACAAT
* * *
12870132 TATCCGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATA
* *
12870197 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
66 GTAGCCTGCACTTAGTACTACACAAGTGATCACAAT
* * *
12870233 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
12870272 TGCGACCTCA
Statistics
Matches: 117, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
98 37 0.32
99 42 0.36
100 1 0.01
101 37 0.32
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (101 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATA
GTAGCCTGCACTTAGTACTACACAAGTGATCACAAT
Found at i:12872579 original size:28 final size:28
Alignment explanation
Indices: 12872548--12872632 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 28
12872538 GATTTGAGAT
12872548 GTCAAAATAATGTGATTATCCAGATTGA
1 GTCAAAATAATGTGATTATCCAGATTGA
*
12872576 GTCAGAAA-AATGATAGATT-T-AAGA-T-A
1 GTCA-AAATAATG-T-GATTATCCAGATTGA
12872602 -TCAAAATAATGTGATTATCCAGATTGA
1 GTCAAAATAATGTGATTATCCAGATTGA
12872629 GTCA
1 GTCA
12872633 GATGATCTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 18
0.70 0.03 0.27
Matches are distributed among these distances:
23 4 0.09
24 5 0.11
25 10 0.22
26 2 0.04
27 2 0.04
28 14 0.30
29 5 0.11
30 4 0.09
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (28 bp):
GTCAAAATAATGTGATTATCCAGATTGA
Found at i:12872606 original size:53 final size:53
Alignment explanation
Indices: 12872526--12872634 Score: 191
Period size: 53 Copynumber: 2.1 Consensus size: 53
12872516 AAATTGCAAA
* *
12872526 AGAAAAACGATAGATTTGAGATGTCAAAATAATGTGATTATCCAGATTGAGTC
1 AGAAAAACGATAGATTTAAGATATCAAAATAATGTGATTATCCAGATTGAGTC
*
12872579 AGAAAAATGATAGATTTAAGATATCAAAATAATGTGATTATCCAGATTGAGTC
1 AGAAAAACGATAGATTTAAGATATCAAAATAATGTGATTATCCAGATTGAGTC
12872632 AGA
1 AGA
12872635 TGATCTGAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.28
Consensus pattern (53 bp):
AGAAAAACGATAGATTTAAGATATCAAAATAATGTGATTATCCAGATTGAGTC
Found at i:12872625 original size:25 final size:25
Alignment explanation
Indices: 12872544--12872625 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 25
12872534 GATAGATTTG
*
12872544 AGATGTCAAAATAATGTGATTATCC
1 AGATATCAAAATAATGTGATTATCC
*
12872569 AGATTGAGTCAGAAA-AATGATAGATT-T-A
1 AGA-T-A-TCA-AAATAATG-T-GATTATCC
12872597 AGATATCAAAATAATGTGATTATCC
1 AGATATCAAAATAATGTGATTATCC
12872622 AGAT
1 AGAT
12872626 TGAGTCAGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 18
0.68 0.05 0.27
Matches are distributed among these distances:
23 4 0.09
24 5 0.11
25 14 0.31
26 2 0.04
27 1 0.02
28 10 0.22
29 5 0.11
30 4 0.09
ACGTcount: A:0.44, C:0.09, G:0.17, T:0.30
Consensus pattern (25 bp):
AGATATCAAAATAATGTGATTATCC
Found at i:12880426 original size:72 final size:72
Alignment explanation
Indices: 12880172--12880431 Score: 317
Period size: 72 Copynumber: 3.6 Consensus size: 72
12880162 ATGCCCGCAT
* * * * * *
12880172 TTGAGCTACTCACGGGTCTATACACAAATTCGGCACCTGAACCCCAAAGCATTATCATGTAATGC
1 TTGAGTTACTCACGGGTTTATACACAAAGTCAGCACCCGGACCCCAAAGCATTATCATGTAATGC
12880237 CCACTCA
66 CCACTCA
* *
12880244 TTGAGTTACTCACGGGTTTATACACAAAGTCAGTACCCAGACCCCAAAGCATTATCATGTAATGC
1 TTGAGTTACTCACGGGTTTATACACAAAGTCAGCACCCGGACCCCAAAGCATTATCATGTAATGC
12880309 CCACTCA
66 CCACTCA
** * * * *
12880316 TTGAGCCACTCATGGTTTTATACACAAAGTCAGTACCCGGACCCCAAAGCATTAACATG-ATATG
1 TTGAGTTACTCACGGGTTTATACACAAAGTCAGCACCCGGACCCCAAAGCATTATCATGTA-ATG
* *
12880380 CTCACCCA
65 CCCACTCA
* * *
12880388 GCT-AGTTACTCACGGGTTTATACAAAAAGTCCGCACCCGGACCC
1 -TTGAGTTACTCACGGGTTTATACACAAAGTCAGCACCCGGACCC
12880432 ACATTGCATA
Statistics
Matches: 162, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
71 1 0.01
72 160 0.99
73 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (72 bp):
TTGAGTTACTCACGGGTTTATACACAAAGTCAGCACCCGGACCCCAAAGCATTATCATGTAATGC
CCACTCA
Found at i:12882645 original size:40 final size:40
Alignment explanation
Indices: 12882597--12882903 Score: 542
Period size: 40 Copynumber: 7.7 Consensus size: 40
12882587 GCAAACACAT
* *
12882597 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
12882637 TTACCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
** *
12882677 TTGCCTTCGGGTCACAGCCCGGATATATCAACTCGCATAG
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
12882717 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
12882757 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
12882797 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
12882837 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
12882877 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
12882904 ATCCAATGCT
Statistics
Matches: 254, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 254 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:12889930 original size:40 final size:40
Alignment explanation
Indices: 12889882--12890188 Score: 551
Period size: 40 Copynumber: 7.7 Consensus size: 40
12889872 GCAAACACAT
* *
12889882 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
12889922 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
** *
12889962 TTGCCTTCGGGTCACAGCCCGGATATATCAACTCGCATAG
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
12890002 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
12890042 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
12890082 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
12890122 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
12890162 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
12890189 ATCCAATGCT
Statistics
Matches: 256, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 256 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:12898911 original size:46 final size:45
Alignment explanation
Indices: 12898810--12898978 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 45
12898800 ATATATCCGT
* *
12898810 GCCGATGCATGTCCCAAACATGTCTTACACTAGC--ACATCTCGTA
1 GCCGATGCATGTCCCAGACAAGTCTTACACTAGCTTACATCTCG-A
* * * *
12898854 GTCAATGCATGTCCTAGACAAGTCTTACACTGGCTTACATCTCGA
1 GCCGATGCATGTCCCAGACAAGTCTTACACTAGCTTACATCTCGA
* * *
12898899 GCCCGATGCATGTCCTAGACAAGTCTTACACTAGCTCT-CGTCTCAA
1 G-CCGATGCATGTCCCAGACAAGTCTTACACTAGCT-TACATCTCGA
*
12898945 TGCCGATGCATGTCCCAGACATGTCTTACACTAG
1 -GCCGATGCATGTCCCAGACAAGTCTTACACTAG
12898979 AATTTCATAA
Statistics
Matches: 107, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
44 28 0.26
45 2 0.02
46 75 0.70
47 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACAAGTCTTACACTAGCTTACATCTCGA
Found at i:12901512 original size:28 final size:28
Alignment explanation
Indices: 12901480--12901535 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
12901470 GCCACGACTC
12901480 CGCCAAATGAAAAAGAGAATTAAAATTT
1 CGCCAAATGAAAAAGAGAATTAAAATTT
12901508 CGCCAAATGAAAAAGAGAATTAAAATTT
1 CGCCAAATGAAAAAGAGAATTAAAATTT
12901536 TCTTTCTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.11, G:0.14, T:0.21
Consensus pattern (28 bp):
CGCCAAATGAAAAAGAGAATTAAAATTT
Found at i:12903356 original size:46 final size:46
Alignment explanation
Indices: 12903286--12903458 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
12903276 TGTAACCCGC
* * * *
12903286 CCATAAGTGAACTCGGACTAAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAGGTGAACTCGGACTCAACTCAATGAGTTCAGACGTTCGCAT
* * * * *
12903332 CCATAGGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAG-TT
1 CCATAGGTGAACTCGGACTCAACTCAATGAGTTCAGACG-TTCGCAT
* **** * *
12903378 ACATCTCACGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCAT-AGGTGAACTCGGACTCAACTCAATGAGTTCAGACGTTCGCAT
*
12903425 CCATAGGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAGGTGAACTCGGACTCAACTCAATGAGTTC
12903459 GGATGCTCAA
Statistics
Matches: 98, Mismatches: 26, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
46 65 0.66
47 33 0.34
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAGGTGAACTCGGACTCAACTCAATGAGTTCAGACGTTCGCAT
Found at i:12903457 original size:93 final size:93
Alignment explanation
Indices: 12903294--12903464 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
12903284 GCCCATAAGT
* * *
12903294 GAACTCGGACTAAACTCAATGAGCTCAGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTAAACTCAACGAGCTCAGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
*
12903359 TGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
12903387 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTAAACTCAACGAGCTCAGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
12903452 CGAGTTCGGATGC
66 CGAGTTCGGATGC
12903465 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTAAACTCAACGAGCTCAGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:12905970 original size:30 final size:30
Alignment explanation
Indices: 12905934--12906122 Score: 147
Period size: 30 Copynumber: 6.3 Consensus size: 30
12905924 AGCTATCCTT
*
12905934 TTTTCATAATTTGATGGTCGTCACCATCCA
1 TTTTCATAATTTGATGGTCGTCACCATCCC
** * *
12905964 TTTTCATTGTTTGATAGTCGTCACCATCCT
1 TTTTCATAATTTGATGGTCGTCACCATCCC
* * * **
12905994 TTTTCATAATCTGATAG-C-TAAAGTTATCCC
1 TTTTCATAATTTGATGGTCGT-CA-CCATCCC
* *
12906024 TTTTCATAGA-TCGATGG-C-TGAAGCCATCCC
1 TTTTCATA-ATTTGATGGTCGT-CA-CCATCCC
* *
12906054 TTTTCATAGTTCGATGGTCGTCACCATCCC
1 TTTTCATAATTTGATGGTCGTCACCATCCC
*
12906084 TTTTCATTA-TTGATGGTCGTCACCATCCC
1 TTTTCATAATTTGATGGTCGTCACCATCCC
*
12906113 TCTTCATAAT
1 TTTTCATAAT
12906123 CGATAGCCGA
Statistics
Matches: 128, Mismatches: 24, Indels: 14
0.77 0.14 0.08
Matches are distributed among these distances:
28 1 0.01
29 28 0.22
30 95 0.74
31 3 0.02
32 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.40
Consensus pattern (30 bp):
TTTTCATAATTTGATGGTCGTCACCATCCC
Found at i:12907819 original size:55 final size:55
Alignment explanation
Indices: 12907754--12907864 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
12907744 AGCTCACAGC
*
12907754 AGCCCACACATTTCATTATTTTACAAATTACACATTGAATATTTTTCATTTTTCA
1 AGCCCACACATTTCAATATTTTACAAATTACACATTGAATATTTTTCATTTTTCA
12907809 AGCCCACACATTTCAATATTTTACAAATTACACATTGAATATTTTTCATTTTTCA
1 AGCCCACACATTTCAATATTTTACAAATTACACATTGAATATTTTTCATTTTTCA
12907864 A
1 A
12907865 TTTAATCCCT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.42
Consensus pattern (55 bp):
AGCCCACACATTTCAATATTTTACAAATTACACATTGAATATTTTTCATTTTTCA
Found at i:12911716 original size:16 final size:17
Alignment explanation
Indices: 12911690--12911734 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
12911680 GTTTAATTGG
*
12911690 TTTAGTTGTTTGTTTAT
1 TTTAGTTGTTTATTTAT
12911707 TTTA-TTGTTTATTTAT
1 TTTAGTTGTTTATTTAT
*
12911723 TTTAGTTATTTA
1 TTTAGTTGTTTA
12911735 GGTTTGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.71
Consensus pattern (17 bp):
TTTAGTTGTTTATTTAT
Found at i:12913154 original size:24 final size:22
Alignment explanation
Indices: 12913106--12913167 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 22
12913096 CTTCCATTTT
*
12913106 TCCCACTAAGGGCTCTCATACG
1 TCCCACTAAGGGCTCTCAAACG
*
12913128 TCCCACATAAGGGGCTCTCAAATG
1 TCCCAC-TAA-GGGCTCTCAAACG
* *
12913152 TCCTATTAAGGGCTCT
1 TCCCACTAAGGGCTCT
12913168 TACACATCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 13 0.38
23 6 0.18
24 15 0.44
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (22 bp):
TCCCACTAAGGGCTCTCAAACG
Found at i:12921245 original size:40 final size:40
Alignment explanation
Indices: 12921201--12921306 Score: 124
Period size: 40 Copynumber: 2.6 Consensus size: 40
12921191 CGACGATAAA
12921201 TCGGCTAT-TAGTGGCACTTAGTGTGCAAATCGACATAGCT
1 TCGGCTATATA-TGGCACTTAGTGTGCAAATCGACATAGCT
** * * *
12921241 TCGGCTATATATGGCACTTAGTGTGTGATTTGAGATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCAAATCGACATAGCT
* * *
12921281 TCGGCTATGTACGACACTTAGTGTGC
1 TCGGCTATATATGGCACTTAGTGTGC
12921307 GAGATATCGA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 54 0.96
41 2 0.04
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (40 bp):
TCGGCTATATATGGCACTTAGTGTGCAAATCGACATAGCT
Found at i:12921389 original size:56 final size:56
Alignment explanation
Indices: 12921298--12921404 Score: 171
Period size: 56 Copynumber: 1.9 Consensus size: 56
12921288 TGTACGACAC
* *
12921298 TTAGTGTGCGAGATATCGAATATGGCACTTGGTGTGCGAGATATTAAGTATGGCAA
1 TTAGTGCGCGAGATATCGAATATGGCACTTAGTGTGCGAGATATTAAGTATGGCAA
*
12921354 TTAGTGCGCGAGATATC-AAGTATGGCACTTAGTGTGCGAGATATTGAGTAT
1 TTAGTGCGCGAGATATCGAA-TATGGCACTTAGTGTGCGAGATATTAAGTAT
12921405 TCAACTACAC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
55 2 0.04
56 45 0.96
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.31
Consensus pattern (56 bp):
TTAGTGCGCGAGATATCGAATATGGCACTTAGTGTGCGAGATATTAAGTATGGCAA
Found at i:12921404 original size:28 final size:28
Alignment explanation
Indices: 12921295--12921397 Score: 154
Period size: 28 Copynumber: 3.7 Consensus size: 28
12921285 CTATGTACGA
12921295 CACTTAGTGTGCGAGATATCGAA-TATGG
1 CACTTAGTGTGCGAGATATC-AAGTATGG
* *
12921323 CACTTGGTGTGCGAGATATTAAGTATGG
1 CACTTAGTGTGCGAGATATCAAGTATGG
* *
12921351 CAATTAGTGCGCGAGATATCAAGTATGG
1 CACTTAGTGTGCGAGATATCAAGTATGG
12921379 CACTTAGTGTGCGAGATAT
1 CACTTAGTGTGCGAGATAT
12921398 TGAGTATTCA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
27 2 0.03
28 64 0.97
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (28 bp):
CACTTAGTGTGCGAGATATCAAGTATGG
Found at i:12930935 original size:42 final size:43
Alignment explanation
Indices: 12930856--12930965 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 43
12930846 TCCCGGACGT
* * **
12930856 GGTCTTACATGCAATTCAATATCGATGCCTCTGTCCCAAACAG
1 GGTCTTACACGCAAATCAATATCGATGCCAATGTCCCAAACAG
* *
12930899 GGTCTTACACG-AAATCAGATAT-GATGCCAATGTCCCAGACAT
1 GGTCTTACACGCAAATCA-ATATCGATGCCAATGTCCCAAACAG
* *
12930941 GGTCTTATACGTAAATCTAA-ATCGA
1 GGTCTTACACGCAAATC-AATATCGA
12930966 AGTCTGTGTC
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
42 33 0.59
43 22 0.39
44 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGCAAATCAATATCGATGCCAATGTCCCAAACAG
Found at i:12933490 original size:49 final size:49
Alignment explanation
Indices: 12933433--12933530 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
12933423 CTGATGACAC
12933433 AGGAAATGACTTAGAAGAACATCTCTTTTGGAACTCTCAAATCATTCTA
1 AGGAAATGACTTAGAAGAACATCTCTTTTGGAACTCTCAAATCATTCTA
12933482 AGGAAATGACTTAGAAGAACATCTCTTTTGGAACTCTCAAATCATTCTA
1 AGGAAATGACTTAGAAGAACATCTCTTTTGGAACTCTCAAATCATTCTA
12933531 TCTCGTTGTA
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:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (49 bp):
AGGAAATGACTTAGAAGAACATCTCTTTTGGAACTCTCAAATCATTCTA
Found at i:12935966 original size:36 final size:36
Alignment explanation
Indices: 12935883--12935978 Score: 104
Period size: 36 Copynumber: 2.7 Consensus size: 36
12935873 CATCGTCAGT
* * * *
12935883 CCAACCAAAACACACCAAACGCTCACACAAGCTAAT
1 CCAATCAAAACACACCAAATGCTCACACAAGCCAAA
** *
12935919 CCCTTCAAAACACACCAAATGCTCACACGAGCCAAA
1 CCAATCAAAACACACCAAATGCTCACACAAGCCAAA
* *
12935955 CTAATCGAAACACACC-AATGCTCA
1 CCAATCAAAACACACCAAATGCTCA
12935979 AAAGAGCTAG
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
35 8 0.16
36 41 0.84
ACGTcount: A:0.44, C:0.38, G:0.07, T:0.11
Consensus pattern (36 bp):
CCAATCAAAACACACCAAATGCTCACACAAGCCAAA
Found at i:12943659 original size:41 final size:39
Alignment explanation
Indices: 12943553--12943678 Score: 119
Period size: 42 Copynumber: 3.1 Consensus size: 39
12943543 TATAAATATC
*
12943553 TTATTGTTAATAATATT-TTAATCTAAAATTTTAATATTT
1 TTATTGTTAATAATATTATTAATCT-AAATTTTGATATTT
* ** *
12943592 TTATTTTTTGTAATATTTATTTAATCTGAATTTTTGATATTT
1 TTATTGTTAATAATA-TTA-TTAATCT-AAATTTTGATATTT
* * **
12943634 TTATTGTTAATAACATTATCCAATCTAAAAGTTGATATTT
1 TTATTGTTAATAATATTAT-TAATCTAAATTTTGATATTT
12943674 TTATT
1 TTATT
12943679 TTTATTTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 7
0.77 0.16 0.08
Matches are distributed among these distances:
39 12 0.17
40 19 0.28
41 8 0.12
42 30 0.43
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (39 bp):
TTATTGTTAATAATATTATTAATCTAAATTTTGATATTT
Found at i:12947611 original size:20 final size:20
Alignment explanation
Indices: 12947560--12947611 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
12947550 TGAATACCCG
*
12947560 TTAAAATAA-TTTTCACCTA
1 TTAAAATAATTTTTCACATA
* *
12947579 TTAAATTATTTTTTCACATA
1 TTAAAATAATTTTTCACATA
*
12947599 TTAAAACAATTTT
1 TTAAAATAATTTT
12947612 AACTTGATAG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (20 bp):
TTAAAATAATTTTTCACATA
Found at i:12955679 original size:5 final size:5
Alignment explanation
Indices: 12955669--12955695 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
12955659 AAAAATGTGA
12955669 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
12955696 CACACAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:12961638 original size:22 final size:23
Alignment explanation
Indices: 12961613--12961671 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
12961603 TGGGATTGTT
12961613 ATTTTTTAATAAAATTTTTAT-A
1 ATTTTTTAATAAAATTTTTATGA
* *
12961635 ATTTTTGT-TTATAATTTTTATGA
1 ATTTTT-TAATAAAATTTTTATGA
*
12961658 GTTTTTTAA-AAAAT
1 ATTTTTTAATAAAAT
12961672 AATTTTTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
22 22 0.76
23 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (23 bp):
ATTTTTTAATAAAATTTTTATGA
Found at i:12961645 original size:13 final size:13
Alignment explanation
Indices: 12961629--12961653 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12961619 TAATAAAATT
12961629 TTTATAATTTTTG
1 TTTATAATTTTTG
12961642 TTTATAATTTTT
1 TTTATAATTTTT
12961654 ATGAGTTTTT
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:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTATAATTTTTG
Found at i:12965106 original size:31 final size:31
Alignment explanation
Indices: 12965068--12965128 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
12965058 AGTTTGGTTA
12965068 CTTGAATTCTTCAAATTTGCTTTCTTTCTTT
1 CTTGAATTCTTCAAATTTGCTTTCTTTCTTT
12965099 CTTGAATTCTTCAAATTTGCTTTCTTTCTT
1 CTTGAATTCTTCAAATTTGCTTTCTTTCTT
12965129 CTTTTTTCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.16, C:0.20, G:0.07, T:0.57
Consensus pattern (31 bp):
CTTGAATTCTTCAAATTTGCTTTCTTTCTTT
Found at i:12970896 original size:27 final size:27
Alignment explanation
Indices: 12970866--12971042 Score: 203
Period size: 27 Copynumber: 6.5 Consensus size: 27
12970856 TATTGAGCCT
* * * *
12970866 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTACATAGTCAAATC
* *
12970893 GCACACTTAGTGCTACGTAATCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
12970920 GCACACTTAGTGCTACATAGTCAAACTC
1 GCACACTTAGTGCTACATAGTCAAA-TC
** * *
12970948 GCACACTTAGTGCCGCATGGTCAATTC
1 GCACACTTAGTGCTACATAGTCAAATC
* **
12970975 GCACACTTAGTGC-ATCATATTCATTTC
1 GCACACTTAGTGCTA-CATAGTCAAATC
*
12971002 GCACACTTAGTGCAACATAGTCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
12971029 GCACACTTAGTGCT
1 GCACACTTAGTGCT
12971043 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAGTCAAATC
Found at i:12971004 original size:82 final size:81
Alignment explanation
Indices: 12970886--12971041 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
12970876 TGCTATATAA
* *
12970886 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
12970951 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
12970968 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
12971032 CACTTAGTGC
65 CACTTAGTGC
12971042 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:12971613 original size:13 final size:13
Alignment explanation
Indices: 12971595--12971619 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12971585 TACTAAATTT
12971595 TCATGGATTCAAG
1 TCATGGATTCAAG
12971608 TCATGGATTCAA
1 TCATGGATTCAA
12971620 TATACCATTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:12978746 original size:27 final size:27
Alignment explanation
Indices: 12978716--12978892 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
12978706 ATATTGAGCC
* *
12978716 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
12978743 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
12978770 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
12978798 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* *
12978825 CGCACACTTAGTGC-ATCATATTC-ATT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
12978851 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
12978878 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
12978893 GTACAATTTA
Statistics
Matches: 129, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
26 23 0.18
27 82 0.64
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:12978808 original size:55 final size:54
Alignment explanation
Indices: 12978716--12978892 Score: 205
Period size: 55 Copynumber: 3.3 Consensus size: 54
12978706 ATATTGAGCC
* * * * *
12978716 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
12978770 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* * *
12978825 CGCACACTTAGTGC-ATCATATTC-ATTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
12978878 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
12978893 GTACAATTTA
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
53 38 0.37
54 21 0.20
55 45 0.43
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:12979458 original size:13 final size:13
Alignment explanation
Indices: 12979440--12979464 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12979430 TACTAAATTT
12979440 TCATGGATTCAAG
1 TCATGGATTCAAG
12979453 TCATGGATTCAA
1 TCATGGATTCAA
12979465 TATACCATTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:12980636 original size:22 final size:22
Alignment explanation
Indices: 12980608--12980672 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
12980598 GCAAATACGT
*
12980608 TTGGCACACAGCCATAGTCAGG
1 TTGGCACAAAGCCATAGTCAGG
*
12980630 TTGGCACAGAGCCATATGT-AGG
1 TTGGCACAAAGCCATA-GTCAGG
* *
12980652 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAGTCAG
12980673 AAGGCTTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.92
23 2 0.05
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAGG
Found at i:12981395 original size:27 final size:27
Alignment explanation
Indices: 12981093--12981387 Score: 369
Period size: 27 Copynumber: 11.0 Consensus size: 27
12981083 GGGACAAAAT
* * * *
12981093 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
12981119 GGTAATTCCATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
12981146 GGTAATTCTACCCTACAAGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
12981173 GATAATTCTACCCTACAGGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
12981200 GATAATTTTAGCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
12981227 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
12981254 GGTAATTCTACCCTACAAGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
12981280 TGGTAATTTTACCCTATAGGGGTATTCC
1 -GGTAATTCTACCCTACAGGGGTATTTC
12981308 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
12981335 GGTAATTCTACCCTGCAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
12981362 AGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
12981388 TAGTAATTTC
Statistics
Matches: 229, Mismatches: 37, Indels: 5
0.85 0.14 0.02
Matches are distributed among these distances:
26 15 0.07
27 212 0.93
28 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:12981409 original size:54 final size:54
Alignment explanation
Indices: 12981093--12981450 Score: 332
Period size: 54 Copynumber: 6.6 Consensus size: 54
12981083 GGGACAAAAT
* * * * * * *
12981093 GGTAATTTTACCCCACA-AGGTATCTCGGTAATTCCATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTTGGTAATTTCACCCTATAGGGGTATTTC
* ** * * *
12981146 GGTAATTCTACCCTACAAGGGTATTGCGATAA-TTCTACCCTACAGGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTTGGTAATTTC-ACCCTATAGGGGTATTTC
* * * * *
12981200 GATAATTTTAGCCTACAAGGGTATTTCGGTAA-TTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTTGGTAATTTC-ACCCTATAGGGGTATTTC
* * * *
12981254 GGTAATTCTACCCTACAAGGGTATTCTGGTAATTTTACCCTATAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTTGGTAATTTCACCCTATAGGGGTATTTC
* **
12981308 GGTAATTCTACCCTACAGGGGTATTTCGGTAA-TTCTACCCTGCAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTTGGTAATTTC-ACCCTATAGGGGTATTTC
* * ** *
12981362 AGTAATTCTACCCTACAGGGGTATTTTAGTAATTTCA-CAAATTAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTTGGTAATTTCACCCTA-TAGGGGTATTTC
* **
12981416 GGTAATTTTA-CAAACCAGGGGTATTTTGGTAATTT
1 GGTAATTCTACCCTA-CAGGGGTATTTTGGTAATTT
12981451 TATTGATCGA
Statistics
Matches: 254, Mismatches: 44, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
53 22 0.09
54 227 0.89
55 5 0.02
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAGGGGTATTTTGGTAATTTCACCCTATAGGGGTATTTC
Found at i:12981451 original size:27 final size:27
Alignment explanation
Indices: 12981377--12981478 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
12981367 TTCTACCCTA
* *
12981377 CAGGGGTATTTTAGTAATTTCACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAAT
* *
12981404 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAT
***
12981431 CAGGGGTATTTTGGTAATTTTATTGAT
1 CAGGGGTATTTTGGTAATTTTACAAAT
12981458 C-GAGGGTATTTTGGTAATTTT
1 CAG-GGGTATTTTGGTAATTTT
12981479 GTAAACCAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
26 1 0.02
27 64 0.98
ACGTcount: A:0.26, C:0.07, G:0.24, T:0.43
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAT
Found at i:12981492 original size:27 final size:27
Alignment explanation
Indices: 12981380--12981495 Score: 106
Period size: 27 Copynumber: 4.3 Consensus size: 27
12981370 TACCCTACAG
* * * ** *
12981380 GGGTATTTTAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTATAAACCAA
* *
12981407 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
** * *
12981434 GGGTATTTTGGTAATTTTATTGATCGA
1 GGGTATTTTGGTAATTTTATAAACCAA
*
12981461 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
*
12981488 AGGTATTT
1 GGGTATTT
12981496 CAATAATTTT
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:12981514 original size:54 final size:54
Alignment explanation
Indices: 12981380--12981914 Score: 294
Period size: 54 Copynumber: 9.9 Consensus size: 54
12981370 TACCCTACAG
* * * * * * *
12981380 GGGTATTTTAGTAATTTCACAAAT-TAGGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTATAAATCGA-GGGTATTTTGGTAATTTTATAAATCAA
** ** * *
12981434 GGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAATCAA
* * * * *** * * *
12981488 AGGTATTTCAATAATTTTGTAAATCGATGGTAAAATGGCAATTCTGTAAATCAA
1 GGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAATCAA
*** * * * *** ** *
12981542 GGGTAAGACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATCCTATAAGTCAA
1 GGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAATCAA
*** * *** * * * *
12981596 GGGTAAAAC-GATAATTCTATAAATCGAGGGTAAAATGATAATTCTAT--CTTATA
1 GGGTATTTCAG-TAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAATCA-A
* * * ** **
12981649 GGAGTAATTCAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGCAAA-CTGT
1 GG-GTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAATC-AA
* * *
12981704 GGGTATTTCAGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATCAA
1 GGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAATCAA
* * * * ** * *
12981758 GGGTACTTT-GGTAATTTTACAAGTTGAGGGTATTTCAGTAATTTTACAAATCGA
1 GGGTA-TTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAATCAA
** * * *
12981812 GGGTATTTCAGTAATTTTGCAAATTGAGGGTATTTCGGTAATTTTACAAATCTAA
1 GGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAATC-AA
* * * *
12981867 -GGTATTTCAATAATTTTA-CAATCGATGGTATTTCGGTAATTTTATAAA
1 GGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAA
12981915 CCGGGGGTAC
Statistics
Matches: 385, Mismatches: 84, Indels: 25
0.78 0.17 0.05
Matches are distributed among these distances:
52 2 0.01
53 33 0.09
54 341 0.89
55 9 0.02
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.38
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAATCAA
Found at i:12981635 original size:27 final size:27
Alignment explanation
Indices: 12981498--12981642 Score: 146
Period size: 27 Copynumber: 5.4 Consensus size: 27
12981488 AGGTATTTCA
* * *
12981498 ATAATTTTGTAAATCGATGGTAAAATG
1 ATAATTCTATAAATCGAGGGTAAAATG
** * * * *
12981525 GCAATTCTGTAAATCAAGGGTAAGACG
1 ATAATTCTATAAATCGAGGGTAAAATG
* *
12981552 GTAATTCTGTAAATCGAGGGTAAAATG
1 ATAATTCTATAAATCGAGGGTAAAATG
* * * * *
12981579 GTAATCCTATAAGTCAAGGGTAAAACG
1 ATAATTCTATAAATCGAGGGTAAAATG
12981606 ATAATTCTATAAATCGAGGGTAAAATG
1 ATAATTCTATAAATCGAGGGTAAAATG
12981633 ATAATTCTAT
1 ATAATTCTAT
12981643 CTTATAGGAG
Statistics
Matches: 97, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.30
Consensus pattern (27 bp):
ATAATTCTATAAATCGAGGGTAAAATG
Found at i:12981689 original size:27 final size:27
Alignment explanation
Indices: 12981656--12981961 Score: 334
Period size: 27 Copynumber: 11.4 Consensus size: 27
12981646 ATAGGAGTAA
12981656 TTCAGTAATTTTACAAATCGAGGGTAT
1 TTCAGTAATTTTACAAATCGAGGGTAT
* * *
12981683 TTTAGTAATTTTGCAAA-CTGTGGGTAT
1 TTCAGTAATTTTACAAATC-GAGGGTAT
*
12981710 TTCAGTAATTTTACAAATCGAGGATAT
1 TTCAGTAATTTTACAAATCGAGGGTAT
** * *
12981737 TTGGGTAATTTTATAAATCAAGGGTACT
1 TTCAGTAATTTTACAAATCGAGGGTA-T
* * *
12981765 TT-GGTAATTTTACAAGTTGAGGGTAT
1 TTCAGTAATTTTACAAATCGAGGGTAT
12981791 TTCAGTAATTTTACAAATCGAGGGTAT
1 TTCAGTAATTTTACAAATCGAGGGTAT
* *
12981818 TTCAGTAATTTTGCAAATTGAGGGTAT
1 TTCAGTAATTTTACAAATCGAGGGTAT
* * *
12981845 TTCGGTAATTTTACAAATCTAAGGTAT
1 TTCAGTAATTTTACAAATCGAGGGTAT
* *
12981872 TTCAATAATTTTAC-AATCGATGGTAT
1 TTCAGTAATTTTACAAATCGAGGGTAT
* * * *
12981898 TTCGGTAATTTTATAAACCGGGGGTACT
1 TTCAGTAATTTTACAAATCGAGGGTA-T
* *
12981926 TT-GGTAATTTTACAACT-GAGGGTAT
1 TTCAGTAATTTTACAAATCGAGGGTAT
12981951 TTCAGTAATTT
1 TTCAGTAATTT
12981962 GGTAAACTAA
Statistics
Matches: 231, Mismatches: 41, Indels: 15
0.80 0.14 0.05
Matches are distributed among these distances:
25 3 0.01
26 38 0.16
27 183 0.79
28 7 0.03
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
TTCAGTAATTTTACAAATCGAGGGTAT
Found at i:12985327 original size:49 final size:49
Alignment explanation
Indices: 12985255--12985398 Score: 191
Period size: 49 Copynumber: 2.9 Consensus size: 49
12985245 GCTGAAGTTA
*
12985255 TCTGGTACGCATAGTAGCCTGCACTTAGTACTATACATGCGACCAACAG-
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-ACAGT
* * * * *
12985304 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACAG--T
*
12985355 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
12985399 TCACAATAGA
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
48 4 0.05
49 38 0.47
51 38 0.47
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (49 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACAGT
Found at i:12985382 original size:51 final size:49
Alignment explanation
Indices: 12985258--12985398 Score: 176
Period size: 51 Copynumber: 2.8 Consensus size: 49
12985248 GAAGTTATCT
* * *
12985258 GGTACGCATAGTAGCCTGCACTTAGTACTATACATGCGACCAACAGTCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCG
* * * *
12985307 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCG
*
12985358 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC
12985399 TCACAATAGA
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
48 4 0.05
49 35 0.45
51 38 0.49
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (49 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCG
Found at i:13004105 original size:16 final size:16
Alignment explanation
Indices: 13004094--13004153 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
13004084 TTAATTACTT
13004094 TAATATTAAATTAATA
1 TAATATTAAATTAATA
* * *
13004110 TAATATT-TATCAAGA
1 TAATATTAAATTAATA
* *
13004125 TAAATATTAGATTAAATT
1 T-AATATTAAATT-AATA
13004143 TAATATTAAAT
1 TAATATTAAAT
13004154 CTTATTAAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
15 6 0.18
16 13 0.39
17 11 0.33
18 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:13004168 original size:59 final size:61
Alignment explanation
Indices: 13004097--13004213 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 61
13004087 ATTACTTTAA
* * * *
13004097 TATTAAATTAATATAATATTTATC-A-AGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATCTATAGATAAACATTAAATTAAATTTAATATTAAATCT
*
13004156 TATTAAAATAATAGAATGTTTATCTTATAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATTTATC-TATAGATAAACATTAAATTAAATTTAATATTAA
13004214 GATACTCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 21 0.42
61 1 0.02
62 28 0.56
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (61 bp):
TATTAAAATAATAGAATATTTATCTATAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:13006317 original size:40 final size:40
Alignment explanation
Indices: 13006223--13006367 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
13006213 TACTCGAATG
* *
13006223 ATATCCGAGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
13006264 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * * *
13006304 ATATCCGGGCTAAGTCCCGAAGGTATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
13006344 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
13006368 CTTGTGCGAG
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 60 0.67
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:13018004 original size:22 final size:22
Alignment explanation
Indices: 13017974--13018015 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
13017964 GCCGTATATA
13017974 TCATAAGCTCAGACCACATAAC
1 TCATAAGCTCAGACCACATAAC
* *
13017996 TCATGAGCTCAGATCACATA
1 TCATAAGCTCAGACCACATA
13018016 GTCCCTAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.29, G:0.12, T:0.21
Consensus pattern (22 bp):
TCATAAGCTCAGACCACATAAC
Found at i:13022980 original size:27 final size:27
Alignment explanation
Indices: 13022950--13023127 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
13022940 ATATTGAGCC
* *
13022950 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
13022977 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
13023004 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
13023032 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
13023059 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
13023086 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
13023113 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13023128 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:13023089 original size:82 final size:81
Alignment explanation
Indices: 13022971--13023126 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
13022961 TGCTATATAA
* *
13022971 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
13023036 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
13023053 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
13023117 CACTTAGTGC
65 CACTTAGTGC
13023127 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:13026140 original size:9 final size:9
Alignment explanation
Indices: 13026126--13026156 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
13026116 TATTAAGTAA
13026126 AATTAAATT
1 AATTAAATT
13026135 AATTAAATT
1 AATTAAATT
13026144 AATTAAAATT
1 AATT-AAATT
13026154 AAT
1 AAT
13026157 ATGATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.62
10 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTAAATT
Found at i:13026658 original size:62 final size:59
Alignment explanation
Indices: 13026592--13026708 Score: 153
Period size: 62 Copynumber: 1.9 Consensus size: 59
13026582 AATGATTATC
* * *
13026592 TTAATATTAAATTTAATTTAAGGTTTATCTCATAAATAAATATTCTATTAATTTAATAAGAT
1 TTAATATTAAATTTAATATAAGATTTATCT--T-AATAAATATTATATTAATTTAATAAGAT
* * *
13026654 TTAATATTAAATTTAATATAATATTTATCTTGATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTTAATATAAGATTTATCTTAATAAATATTATATTAATTTAATA
13026709 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 21 0.43
60 1 0.02
62 27 0.55
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (59 bp):
TTAATATTAAATTTAATATAAGATTTATCTTAATAAATATTATATTAATTTAATAAGAT
Found at i:13028458 original size:71 final size:71
Alignment explanation
Indices: 13028265--13028444 Score: 191
Period size: 71 Copynumber: 2.5 Consensus size: 71
13028255 TGTGGGTTCG
* * * * * ** * * *
13028265 GGTACTGACTTTGTGTATAAACCCATGAGTAACTCGCTAAGTGAGCA-TATCATGCTAATGCTTT
1 GGTACTAACTTTATGTACAAACCCGTGAGTAGCTCAATGAGTGAACATTA-CATGATAATGCTTT
13028329 AGGGTCC
65 AGGGTCC
* * *
13028336 GGTACTAACTTTGTGTATAAACCCGTGAGTAGCTCAATGAGTGAACATTACATGATAATGCTTTG
1 GGTACTAACTTTATGTACAAACCCGTGAGTAGCTCAATGAGTGAACATTACATGATAATGCTTTA
13028401 GGGTCC
66 GGGTCC
* * *
13028407 GGGTGCTGACTTTATGTACATACCCGTGAGTAGCTCAA
1 -GGTACTAACTTTATGTACAAACCCGTGAGTAGCTCAA
13028445 ATGCGGGCAT
Statistics
Matches: 93, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
71 59 0.63
72 34 0.37
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (71 bp):
GGTACTAACTTTATGTACAAACCCGTGAGTAGCTCAATGAGTGAACATTACATGATAATGCTTTA
GGGTCC
Found at i:13031338 original size:46 final size:46
Alignment explanation
Indices: 13031265--13031440 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
13031255 TATTTGGGCA
**
13031265 TCCGAACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *** * *
13031311 TCCGAACTCGTTGACTTGAGTCCGAGTTCAAGAGATGTAACTAG-GCAT-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
13031359 T-CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
13031404 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13031441 CAGGTTACAT
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.61
47 29 0.27
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:13031423 original size:93 final size:93
Alignment explanation
Indices: 13031261--13031433 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
13031251 AGGATATTTG
** * *
13031261 GGCATCCGAACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAC
13031326 TTGAGTCCGAGTTCAAGAGATGTAACTA
66 TTGAGTCCGAGTTCAAGAGATGTAACTA
* * * *
13031354 GGCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAC
13031419 TTGAGTCCGAGTTCA
66 TTGAGTCCGAGTTCA
13031434 CTTATGGCAG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAC
TTGAGTCCGAGTTCAAGAGATGTAACTA
Found at i:13036249 original size:23 final size:23
Alignment explanation
Indices: 13036215--13036293 Score: 88
Period size: 23 Copynumber: 3.4 Consensus size: 23
13036205 TGGCAGGAGT
*
13036215 ATTCTAGTACTTCGATGCAATTC
1 ATTCTAGCACTTCGATGCAATTC
* *
13036238 ATTCTTGCACTT-TAGTGCAATTC
1 ATTCTAGCACTTCGA-TGCAATTC
* * *
13036261 ATTCTGGCACTACGGTGCAATTC
1 ATTCTAGCACTTCGATGCAATTC
13036284 ATTCTAGCAC
1 ATTCTAGCAC
13036294 CATATTTCAC
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
22 1 0.02
23 45 0.98
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (23 bp):
ATTCTAGCACTTCGATGCAATTC
Found at i:13036363 original size:20 final size:21
Alignment explanation
Indices: 13036334--13036401 Score: 83
Period size: 20 Copynumber: 3.4 Consensus size: 21
13036324 TTTTTTGAAA
13036334 TTTT-TAACATATTTA-AATT
1 TTTTATAACATATTTATAATT
13036353 TTTTATAACATATTTATAA-T
1 TTTTATAACATATTTATAATT
13036373 TTTTAGTAA-AT-TTTAATAATT
1 TTTTA-TAACATATTT-ATAATT
13036394 TTTTATAA
1 TTTTATAA
13036402 TATTATAGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.16
20 26 0.59
21 11 0.25
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.57
Consensus pattern (21 bp):
TTTTATAACATATTTATAATT
Found at i:13037462 original size:23 final size:23
Alignment explanation
Indices: 13037419--13037463 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13037409 GGTTTCATTT
*
13037419 CAGTCACTCAACTTTTAAAAAAA
1 CAGTCACTCAACTTATAAAAAAA
*
13037442 CAGTCACT-AACGTTATCAAAAA
1 CAGTCACTCAAC-TTATAAAAAA
13037464 GTGACAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.47, C:0.22, G:0.07, T:0.24
Consensus pattern (23 bp):
CAGTCACTCAACTTATAAAAAAA
Found at i:13038822 original size:19 final size:19
Alignment explanation
Indices: 13038798--13038835 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
13038788 CTAGTACGAG
13038798 GTAAGTTTGTACACAAAAC
1 GTAAGTTTGTACACAAAAC
13038817 GTAAGTTTGTACACAAAAC
1 GTAAGTTTGTACACAAAAC
13038836 ATAATGTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (19 bp):
GTAAGTTTGTACACAAAAC
Found at i:13043155 original size:14 final size:15
Alignment explanation
Indices: 13043128--13043158 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
13043118 TAGGGTCTAT
13043128 TTGTTTCACAGAAAA
1 TTGTTTCACAGAAAA
13043143 TTGTTTC-CAGAAAA
1 TTGTTTCACAGAAAA
13043157 TT
1 TT
13043159 ACTTATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (15 bp):
TTGTTTCACAGAAAA
Found at i:13043666 original size:19 final size:19
Alignment explanation
Indices: 13043642--13043678 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13043632 TATTATTACT
*
13043642 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
13043661 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
13043679 TTAATATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:13043783 original size:16 final size:19
Alignment explanation
Indices: 13043764--13043813 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 19
13043754 TGAAATATTA
13043764 AATAATTTATTAA-A-AT-
1 AATAATTTATTAATATATC
13043780 AATAAATTATATTAATTATATC
1 AAT-AATT-TATTAA-TATATC
13043802 AATAATTTATTA
1 AATAATTTATTA
13043814 TATGATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 3 0.11
17 4 0.14
18 6 0.21
20 6 0.21
21 6 0.21
22 3 0.11
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
AATAATTTATTAATATATC
Found at i:13049159 original size:14 final size:14
Alignment explanation
Indices: 13049140--13049169 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
13049130 CATGCTTGGG
13049140 AAATTTACAGAAAC
1 AAATTTACAGAAAC
13049154 AAATTTACAGAAAC
1 AAATTTACAGAAAC
13049168 AA
1 AA
13049170 TACTAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (14 bp):
AAATTTACAGAAAC
Found at i:13053166 original size:22 final size:22
Alignment explanation
Indices: 13053141--13053188 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
13053131 GGAGGTCAAG
*
13053141 TGCCCTTATGAGAAA-GGGCACA
1 TGCCCATATGA-AAAGGGGCACA
*
13053163 TGCCCATGTGAAAAGGGGCACA
1 TGCCCATATGAAAAGGGGCACA
13053185 TGCC
1 TGCC
13053189 AGTGTGGACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.29, C:0.25, G:0.29, T:0.17
Consensus pattern (22 bp):
TGCCCATATGAAAAGGGGCACA
Found at i:13056796 original size:46 final size:47
Alignment explanation
Indices: 13056708--13056824 Score: 121
Period size: 46 Copynumber: 2.5 Consensus size: 47
13056698 CGTCAATGCC
* * *
13056708 ATGTCCCAGACATGTCTTACACTGGCTTACGTCCCGAGGCCGAT-AA
1 ATGTCCCAGACATGTCTTACACTAGCCTACGTCCCAAGGCCGATGAA
* * * **
13056754 ATGTCCCAGACATGTGTTACACTAGCACT-CGTCTCAATGCCGATGCC
1 ATGTCCCAGACATGTCTTACACTAGC-CTACGTCCCAAGGCCGATGAA
*
13056801 ATGTCCCAAACATGGTCTTACACT
1 ATGTCCCAGACAT-GTCTTACACT
13056825 GGCTCTCATA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
46 36 0.62
47 13 0.22
48 9 0.16
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (47 bp):
ATGTCCCAGACATGTCTTACACTAGCCTACGTCCCAAGGCCGATGAA
Found at i:13058144 original size:27 final size:27
Alignment explanation
Indices: 13058120--13058320 Score: 253
Period size: 27 Copynumber: 7.4 Consensus size: 27
13058110 TACCAAATCG
13058120 CCAAAATACCCCTGGTTTGTAAAATTA
1 CCAAAATACCCCTGGTTTGTAAAATTA
* **
13058147 CCAAAATACCCTTGGTTTACAAAATTA
1 CCAAAATACCCCTGGTTTGTAAAATTA
*
13058174 CCAAAATACCCCTGGTTTATAAAATTA
1 CCAAAATACCCCTGGTTTGTAAAATTA
*
13058201 CCAAAATACCCTTGGTTTGTAAAATTA
1 CCAAAATACCCCTGGTTTGTAAAATTA
*
13058228 CCAAAATACCCCTGATTTGTAAAATTA
1 CCAAAATACCCCTGGTTTGTAAAATTA
** *
13058255 CTGAAATA-CCCTCGATTTGTAAAATTA
1 CCAAAATACCCCT-GGTTTGTAAAATTA
** *
13058282 CTGAAATA-CCCTCGATTTGTAAAATTA
1 CCAAAATACCCCT-GGTTTGTAAAATTA
*
13058309 CCAAAGTACCCC
1 CCAAAATACCCC
13058321 CGATTTACAG
Statistics
Matches: 158, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
26 4 0.03
27 151 0.96
28 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
CCAAAATACCCCTGGTTTGTAAAATTA
Found at i:13058353 original size:81 final size:81
Alignment explanation
Indices: 13058122--13058373 Score: 256
Period size: 81 Copynumber: 3.1 Consensus size: 81
13058112 CCAAATCGCC
* ** * *
13058122 AAAATACCC-CTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCC-
1 AAAATACCCTC-GATTTGTAAAATTACCAAAATACCCCCGATTTACAAAATTACCGAAATACCCT
* *
13058185 CTGGTTTATAAAATTACC
65 C-GATTTATAAAATTACT
* * * ** *
13058203 AAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTGAAATACCCTC
1 AAAATACCCTCGATTTGTAAAATTACCAAAATACCCCCGATTTACAAAATTACCGAAATACCCTC
*
13058268 GATTTGTAAAATTACT
66 GATTTATAAAATTACT
* * * *** * *
13058284 GAAATACCCTCGATTTGTAAAATTACCAAAGTACCCCCGATTTACAGAATTACCGTTCTACCTTT
1 AAAATACCCTCGATTTGTAAAATTACCAAAATACCCCCGATTTACAAAATTACCGAAATACCCTC
* *
13058349 GATTTACAAAATTATT
66 GATTTATAAAATTACT
13058365 AAAATACCC
1 AAAATACCC
13058374 CTGTAGGGTA
Statistics
Matches: 141, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
81 140 0.99
82 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.31
Consensus pattern (81 bp):
AAAATACCCTCGATTTGTAAAATTACCAAAATACCCCCGATTTACAAAATTACCGAAATACCCTC
GATTTATAAAATTACT
Found at i:13058388 original size:27 final size:27
Alignment explanation
Indices: 13058366--13058827 Score: 574
Period size: 27 Copynumber: 17.3 Consensus size: 27
13058356 AAAATTATTA
*
13058366 AAATACCCCTGTAGGGTAGAATTACCT
1 AAATACCCCTGTAGGGTAGAATTACCG
** *
13058393 AAATACCTTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
13058420 AAATA-CCCTATAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
13058446 AAATA-CCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
13058472 AAATACCCTTGTAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
13058499 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
**
13058526 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
13058553 AAATACCCTTGTAGGGTAGAAATGCCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
13058580 AACTACCCTTGTAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
13058607 AAATACCCCTGTAAGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
13058634 AAATAGCCCTGTAAGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
13058661 AAATACCCCTGTAGGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
13058688 AAATA-CCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
13058714 AAATA-CCCTATAGGGTAAAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
13058740 CAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* **
13058767 AAATACCCATGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
*
13058794 AAATACCCCTGTAGGGTGGAATTACC-
1 AAATACCCCTGTAGGGTAGAATTACCG
13058820 AAGATACC
1 AA-ATACC
13058828 TTATGGGATA
Statistics
Matches: 381, Mismatches: 51, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
26 93 0.24
27 288 0.76
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:13059324 original size:22 final size:22
Alignment explanation
Indices: 13059272--13059336 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
13059262 TTAAAGCCTT
* *
13059272 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
13059294 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
13059316 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
13059337 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:13059563 original size:28 final size:27
Alignment explanation
Indices: 13059502--13059570 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
13059492 TAAGTGGCTT
* *
13059502 TGCCACATTATCTGTTTCTGGTAGCTA
1 TGCCACAATATCTGTATCTGGTAGCTA
*
13059529 TGCCACAAATATCTGTATCTGGT-GACTC
1 TGCCAC-AATATCTGTATCTGGTAG-CTA
*
13059557 TGTCACAATATCTG
1 TGCCACAATATCTG
13059571 ATAACTGAGC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 15 0.42
28 21 0.58
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTAGCTA
Done.