Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 276 of 356
Found at i:90334670 original size:54 final size:54
Alignment explanation
Indices: 90334564--90334738 Score: 214
Period size: 54 Copynumber: 3.3 Consensus size: 54
90334554 TTAGTTTACC
* * * * *
90334564 AAATTATCAAAATACCCCT-GGTTGT-AAATTA-C-TAATACCCTTGGCTTATA
1 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
* *
90334614 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCCGGTTTGTA
1 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
* * *
90334668 AAATTATCAAAATACCCCCAGTTTGTAAAATTACCAAAATACCCCTGATTTGTG
1 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
**
90334722 AAATTATTGAAATACCC
1 AAATTATCAAAATACCC
90334739 TCGACCTGTA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
50 18 0.17
51 5 0.05
52 6 0.06
53 1 0.01
54 77 0.72
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (54 bp):
AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
Found at i:90334708 original size:81 final size:81
Alignment explanation
Indices: 90334612--90334809 Score: 227
Period size: 81 Copynumber: 2.4 Consensus size: 81
90334602 CCTTGGCTTA
***
90334612 TAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCCGGTTTGTAAAATTATC
1 TAAAATTACCAAAATACCCCTGA-TTTGTAAAATTACCAAAATACCCCCGACCTGTAAAATTATC
**
90334676 AAAATACCCCCAGTTTG
65 AAAATACCCCCAACTTG
* *** * *
90334693 TAAAATTACCAAAATACCCCTGATTTGTGAAATTATTGAAATACCCTCGACCTGTAAAATTATTA
1 TAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCCGACCTGTAAAATTATCA
* *
90334758 AAATACTCTCAACTTG
66 AAATACCCCCAACTTG
* * * *
90334774 TAAAATTACCAAAGTACCCCCGATTTATAGAATTAC
1 TAAAATTACCAAAATACCCCTGATTTGTAAAATTAC
90334810 TGTTTTACCC
Statistics
Matches: 97, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
81 96 0.99
82 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.30
Consensus pattern (81 bp):
TAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCCGACCTGTAAAATTATCA
AAATACCCCCAACTTG
Found at i:90334749 original size:54 final size:54
Alignment explanation
Indices: 90334612--90334794 Score: 170
Period size: 54 Copynumber: 3.4 Consensus size: 54
90334602 CCTTGGCTTA
* * ** *
90334612 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCCGGTTTG
1 TAAAATTATCAAAATACCCCCAGCCTGTAAAATTACCAAAATACCCCCGATTTG
** *
90334666 TAAAATTATCAAAATACCCCCAGTTTGTAAAATTACCAAAATACCCCTGATTTG
1 TAAAATTATCAAAATACCCCCAGCCTGTAAAATTACCAAAATACCCCCGATTTG
* ** * ** * * * *
90334720 TGAAATTATTGAAATACCCTC-GACCTGTAAAATTATTAAAATACTCTCAACTTG
1 TAAAATTATCAAAATACCCCCAG-CCTGTAAAATTACCAAAATACCCCCGATTTG
* *
90334774 TAAAATTACCAAAGTACCCCC
1 TAAAATTATCAAAATACCCCC
90334795 GATTTATAGA
Statistics
Matches: 105, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
53 1 0.01
54 104 0.99
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (54 bp):
TAAAATTATCAAAATACCCCCAGCCTGTAAAATTACCAAAATACCCCCGATTTG
Found at i:90334752 original size:27 final size:27
Alignment explanation
Indices: 90334664--90334781 Score: 85
Period size: 27 Copynumber: 4.4 Consensus size: 27
90334654 ACCCCCGGTT
* * ***
90334664 TGTAAAATTATCAAAATACCCCCAGTT
1 TGTAAAATTATTAAAATACCCTCAACC
** * **
90334691 TGTAAAATTACCAAAATACCC-CTGATT
1 TGTAAAATTATTAAAATACCCTC-AACC
* * *
90334718 TGTGAAATTATTGAAATACCCTCGACC
1 TGTAAAATTATTAAAATACCCTCAACC
* *
90334745 TGTAAAATTATTAAAATACTCTCAACT
1 TGTAAAATTATTAAAATACCCTCAACC
90334772 TGTAAAATTA
1 TGTAAAATTA
90334782 CCAAAGTACC
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 1 0.01
27 73 0.97
28 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
TGTAAAATTATTAAAATACCCTCAACC
Found at i:90334823 original size:54 final size:54
Alignment explanation
Indices: 90334765--90334944 Score: 234
Period size: 54 Copynumber: 3.3 Consensus size: 54
90334755 TTAAAATACT
* * *** *
90334765 CTCAACTTGTAAAATTACCAAAGTACCCCCGATTTATAGAATTACTGTTTTACC
1 CTCAATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACC
*
90334819 CTCAATTTATAAAATTACCATTTTACCCTCGATTTATAAAATTACTGTTTTACC
1 CTCAATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACC
* * * * *
90334873 CTCGATTTATAGAATTATCGTTTTACCCTCGATTTATAGAATTACCGTTTTACC
1 CTCAATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACC
* *
90334927 CTCGATTTACAAAATTAC
1 CTCAATTTATAAAATTAC
90334945 TGAAATACCC
Statistics
Matches: 110, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 110 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.39
Consensus pattern (54 bp):
CTCAATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACC
Found at i:90334832 original size:81 final size:81
Alignment explanation
Indices: 90334666--90334835 Score: 180
Period size: 81 Copynumber: 2.1 Consensus size: 81
90334656 CCCCGGTTTG
** * * *
90334666 TAAAATTATCAAAATACCCCCAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTATTG
1 TAAAATTATCAAAATACCCCCAACTTGTAAAATTACCAAAATACCCCCGATTTATGAAATTACTG
* *
90334731 AAATACCCTCGACCTG
66 AAATACCCTCAACCTA
* * * *
90334747 TAAAATTATTAAAATACTCTCAACTTGTAAAATTACCAAAGTACCCCCGATTTAT-AGAATTACT
1 TAAAATTATCAAAATACCCCCAACTTGTAAAATTACCAAAATACCCCCGATTTATGA-AATTACT
*** **
90334811 GTTTTACCCTCAATTTA
65 GAAATACCCTCAACCTA
90334828 TAAAATTA
1 TAAAATTA
90334836 CCATTTTACC
Statistics
Matches: 72, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
80 1 0.01
81 71 0.99
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (81 bp):
TAAAATTATCAAAATACCCCCAACTTGTAAAATTACCAAAATACCCCCGATTTATGAAATTACTG
AAATACCCTCAACCTA
Found at i:90334945 original size:81 final size:81
Alignment explanation
Indices: 90334788--90334946 Score: 257
Period size: 81 Copynumber: 2.0 Consensus size: 81
90334778 ATTACCAAAG
90334788 TACCCCCGATTTATAGAATTACTGTTTTACCCTCAATTTATAAAATTACCATTTTACCCTCGATT
1 TACCCCCGATTTATAGAATTACTGTTTTACCCTCAATTTATAAAATTACCATTTTACCCTCGATT
*
90334853 TATAAAATTACTGTTT
66 TACAAAATTACTGTTT
* * * *
90334869 TACCCTCGATTTATAGAATTA-TCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGAT
1 TACCCCCGATTTATAGAATTACT-GTTTTACCCTCAATTTATAAAATTACCATTTTACCCTCGAT
90334933 TTACAAAATTACTG
65 TTACAAAATTACTG
90334947 AAATACCCAT
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
80 1 0.01
81 71 0.99
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (81 bp):
TACCCCCGATTTATAGAATTACTGTTTTACCCTCAATTTATAAAATTACCATTTTACCCTCGATT
TACAAAATTACTGTTT
Found at i:90334954 original size:27 final size:27
Alignment explanation
Indices: 90334788--90334946 Score: 221
Period size: 27 Copynumber: 5.9 Consensus size: 27
90334778 ATTACCAAAG
* *
90334788 TACCCCCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* **
90334815 TACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACTGTTT
90334842 TACCCTCGATTTATAAAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
*
90334869 TACCCTCGATTTATAGAATTA-TCGTTT
1 TACCCTCGATTTATAAAATTACT-GTTT
* *
90334896 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
*
90334923 TACCCTCGATTTACAAAATTACTG
1 TACCCTCGATTTATAAAATTACTG
90334947 AAATACCCAT
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 116 0.99
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTGTTT
Found at i:90334954 original size:81 final size:81
Alignment explanation
Indices: 90334775--90334954 Score: 247
Period size: 81 Copynumber: 2.2 Consensus size: 81
90334765 CTCAACTTGT
*
90334775 AAAATTAC-CAAAGTACCCCCGATTTATAGAATTACTGTTTTACCCTCAATTTATAAAATTACCA
1 AAAATTACTGAAA-TACCCCCGATTTATAGAATTACTGTTTTACCCTCAATTTATAAAATTACCA
*
90334839 TTTTACCCTCGATTTAT
65 TTTTACCCTCGATTTAC
*** * * * *
90334856 AAAATTACTGTTTTACCCTCGATTTATAGAATTA-TCGTTTTACCCTCGATTTATAGAATTACCG
1 AAAATTACTGAAATACCCCCGATTTATAGAATTACT-GTTTTACCCTCAATTTATAAAATTACCA
90334920 TTTTACCCTCGATTTAC
65 TTTTACCCTCGATTTAC
90334937 AAAATTACTGAAATACCC
1 AAAATTACTGAAATACCC
90334955 ATGTAAGGTA
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
80 1 0.01
81 84 0.99
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.38
Consensus pattern (81 bp):
AAAATTACTGAAATACCCCCGATTTATAGAATTACTGTTTTACCCTCAATTTATAAAATTACCAT
TTTACCCTCGATTTAC
Found at i:90334969 original size:27 final size:27
Alignment explanation
Indices: 90334939--90335142 Score: 268
Period size: 27 Copynumber: 7.6 Consensus size: 27
90334929 CGATTTACAA
* * *
90334939 AATTACTGAAATACCCATGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
90334966 AATTACCGAAATACCCATGT-GAGGTAG
1 AATTACCGAAATACCCCTGTAG-GGTAG
90334993 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
90335020 AGTTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
90335047 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
90335074 AATTATCGAAATACGCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
90335101 AATTACTAAAATACCCCTGTATGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
90335128 AATTACC-AAGATACC
1 AATTACCGAA-ATACC
90335143 TTGTGGAGTA
Statistics
Matches: 158, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
26 2 0.01
27 155 0.98
28 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:90334981 original size:81 final size:80
Alignment explanation
Indices: 90334815--90334981 Score: 176
Period size: 81 Copynumber: 2.1 Consensus size: 80
90334805 ATTACTGTTT
* ***
90334815 TACCCTCAATTTATAAAATTACCATTTTACCCTCGATTTATAAAATTACTGTTTTACCCTCGATT
1 TACCCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTGAAATACCCTCGA-T
* * ***
90334880 TATAGAATTATCGTTT
65 AATAGAATTACCGAAA
* * *
90334896 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGAAATACCCAT-G-T
1 TACCCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTGAAATACCC-TCGAT
90334959 AAGGTAGAATTACCGAAA
65 AA--TAGAATTACCGAAA
90334977 TACCC
1 TACCC
90334982 ATGTGAGGTA
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
79 2 0.03
81 68 0.96
82 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.37
Consensus pattern (80 bp):
TACCCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTGAAATACCCTCGATA
ATAGAATTACCGAAA
Found at i:90335688 original size:26 final size:27
Alignment explanation
Indices: 90335652--90335724 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
90335642 ATTCTGTTAA
* *
90335652 GTGGCTTTGCCACATTATCTAT-TCTG
1 GTGGCTCTGCCACAATATCTATATCTG
*
90335678 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTATATCTG
* *
90335705 GTGACTCTGTCACAATATCT
1 GTGGCTCTGCCACAATATCT
90335725 GATAACTGAG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 19 0.46
27 22 0.54
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTATATCTG
Found at i:90335907 original size:31 final size:31
Alignment explanation
Indices: 90335862--90335997 Score: 150
Period size: 31 Copynumber: 4.4 Consensus size: 31
90335852 TTGCATTCAC
* *
90335862 ATTCTGATTTTTGATCCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATACTG
* *
90335894 ATTTTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * *
90335925 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
*
90335956 ATTCTGATTCTGATTCTAGTT--CTGATAATG
1 ATTCTGATTCTGATTCT-GTTACCTGATACTG
* *
90335986 TTTCTTATTCTG
1 ATTCTGATTCTG
90335998 TAATGGGTTA
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
30 16 0.18
31 66 0.73
32 8 0.09
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:90335925 original size:6 final size:6
Alignment explanation
Indices: 90335885--90335981 Score: 74
Period size: 6 Copynumber: 15.8 Consensus size: 6
90335875 ATCCTGTTAC
* * * *
90335885 CTGATA CTGATT TTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* *
90335934 CTGATT CTG-TCAC CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
90335982 AATGTTTCTT
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
5 4 0.05
6 62 0.84
7 6 0.08
8 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:90338095 original size:18 final size:18
Alignment explanation
Indices: 90338074--90338126 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
90338064 TTTAACAGTC
*
90338074 AATTATTCAGTAACGATA
1 AATTATTCAGTAACAATA
* * *
90338092 AATTATTTAGTAATAATC
1 AATTATTCAGTAACAATA
90338110 AATTATTCAGTAACAAT
1 AATTATTCAGTAACAAT
90338127 TTTTTTTACG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (18 bp):
AATTATTCAGTAACAATA
Found at i:90338164 original size:18 final size:18
Alignment explanation
Indices: 90338137--90338177 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
90338127 TTTTTTTACG
*
90338137 CAGTAGCAGTCAGTTATC
1 CAGTAACAGTCAGTTATC
*
90338155 CAGTAACAGTCAGTTATT
1 CAGTAACAGTCAGTTATC
90338173 CAGTA
1 CAGTA
90338178 GCAATTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (18 bp):
CAGTAACAGTCAGTTATC
Found at i:90339012 original size:11 final size:11
Alignment explanation
Indices: 90338989--90339029 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
90338979 TTAATATTTA
90338989 AATTTCGTATTC
1 AATTTC-TATTC
90339001 AATTTCTATTC
1 AATTTCTATTC
*
90339012 AATTTCTACTC
1 AATTTCTATTC
90339023 TAATTTC
1 -AATTTC
90339030 AATTTTGATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 15 0.56
12 12 0.44
ACGTcount: A:0.27, C:0.20, G:0.02, T:0.51
Consensus pattern (11 bp):
AATTTCTATTC
Found at i:90339466 original size:25 final size:25
Alignment explanation
Indices: 90339423--90339471 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
90339413 ATTTCTCGCT
*
90339423 TTTCTTTCTTTCCCTTTTTCCTTTC
1 TTTCTTTCTTCCCCTTTTTCCTTTC
*
90339448 TTTCTTTC-TCCCCTGTTTTTCTTT
1 TTTCTTTCTTCCCCT-TTTTCCTTT
90339472 TCTATTGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.00, C:0.31, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTCTTTCTTCCCCTTTTTCCTTTC
Found at i:90341090 original size:19 final size:19
Alignment explanation
Indices: 90341055--90341093 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
90341045 TCCGTCCATC
*
90341055 TTAGAAAAACCCTTTTGTT
1 TTAGAAAAACCCGTTTGTT
90341074 TTAGAGAAAA-CCGTTTGTT
1 TTAGA-AAAACCCGTTTGTT
90341093 T
1 T
90341094 GTTGAGTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (19 bp):
TTAGAAAAACCCGTTTGTT
Found at i:90341791 original size:34 final size:34
Alignment explanation
Indices: 90341738--90341805 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
90341728 ATAATCAAAT
* *
90341738 ACAGTTTCGGGCCTAAGCCTCTTTCGGTACGAGTA
1 ACAGTTTCGGGCCTAAGCCTATCTCGGTAC-AGTA
*
90341773 ACAGTTT-GGGCCTTAGCCTATCTCGGTACAGTA
1 ACAGTTTCGGGCCTAAGCCTATCTCGGTACAGTA
90341806 TCAAATATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 4 0.13
34 19 0.63
35 7 0.23
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (34 bp):
ACAGTTTCGGGCCTAAGCCTATCTCGGTACAGTA
Found at i:90341871 original size:351 final size:351
Alignment explanation
Indices: 90341228--90341930 Score: 1334
Period size: 351 Copynumber: 2.0 Consensus size: 351
90341218 ATTAAAACGG
90341228 TTTAATAATATGTACGGCCACCGTCGAGTCCTCCGCTGTACCGATCTATCAAGTCTGGGGATTAC
1 TTTAATAATATGTACGGCCACCGTCGAGTCCTCCGCTGTACCGATCTATCAAGTCTGGGGATTAC
*
90341293 CTGTGCACATTAAATAGAGAGGGGTGAGTTTACGTAAACTCAGTGTGTAATCCCACAGAAAACAA
66 CTGTGCACATTAAATAGAGAGGGGTGAGTTTACATAAACTCAGTGTGTAATCCCACAGAAAACAA
* *
90341358 ACAACAGTAAACACAGTGCATAATCAAATACAGTTTCGGGCCTAAGCCTCTTTCGGTGCCAGTAA
131 ACAAAAGTAAACACAGTGCATAATCAAATACAGTTTCGGGCCTAAGCCTCTTTCGGTACCAGTAA
90341423 CAGTTTGGGCCTTAGCCTATCTCGGTACAGTATCAAATATGCAGTAGGGCCTTAGCCCATCACAA
196 CAGTTTGGGCCTTAGCCTATCTCGGTACAGTATCAAATATGCAGTAGGGCCTTAGCCCATCACAA
*
90341488 TATCAGTATGCATTATTCAGTAACAAGGTCCTACCCAACCAGCCTCTACACACCATCTCCGTCCA
261 TATCAGTATGCATTATTCAGTAACAAGGTCCTACCCAACCAGCCTCTACACACCATCTCCATCCA
90341553 ACCCTACACTCCATATGGGGATTAAA
326 ACCCTACACTCCATATGGGGATTAAA
*
90341579 TTTAATAATATGTATGGCCACCGTCGAGTCCTCCGCTGTACCGATCTATCAAGTCTGGGGATTAC
1 TTTAATAATATGTACGGCCACCGTCGAGTCCTCCGCTGTACCGATCTATCAAGTCTGGGGATTAC
*
90341644 CTGTGCACATTAAATAGAGAGGGGTGAGTTTACATAAACTCAGTGTGTAATCCCATAGAAAACAA
66 CTGTGCACATTAAATAGAGAGGGGTGAGTTTACATAAACTCAGTGTGTAATCCCACAGAAAACAA
*
90341709 ACAAAAGTAAACACAGTGCATAATCAAATACAGTTTCGGGCCTAAGCCTCTTTCGGTACGAGTAA
131 ACAAAAGTAAACACAGTGCATAATCAAATACAGTTTCGGGCCTAAGCCTCTTTCGGTACCAGTAA
90341774 CAGTTTGGGCCTTAGCCTATCTCGGTACAGTATCAAATATGCAGTAGGGCCTTAGCCCATCACAA
196 CAGTTTGGGCCTTAGCCTATCTCGGTACAGTATCAAATATGCAGTAGGGCCTTAGCCCATCACAA
90341839 TATCAGTATGCATTATTCAGTAACAAGGTCCTACCCAACCAGCCTCTACACACCATCTCCATCCA
261 TATCAGTATGCATTATTCAGTAACAAGGTCCTACCCAACCAGCCTCTACACACCATCTCCATCCA
*
90341904 ACCCTACACTCCATGTGGGGATTAAA
326 ACCCTACACTCCATATGGGGATTAAA
90341930 T
1 T
90341931 CAACCACCCA
Statistics
Matches: 344, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
351 344 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (351 bp):
TTTAATAATATGTACGGCCACCGTCGAGTCCTCCGCTGTACCGATCTATCAAGTCTGGGGATTAC
CTGTGCACATTAAATAGAGAGGGGTGAGTTTACATAAACTCAGTGTGTAATCCCACAGAAAACAA
ACAAAAGTAAACACAGTGCATAATCAAATACAGTTTCGGGCCTAAGCCTCTTTCGGTACCAGTAA
CAGTTTGGGCCTTAGCCTATCTCGGTACAGTATCAAATATGCAGTAGGGCCTTAGCCCATCACAA
TATCAGTATGCATTATTCAGTAACAAGGTCCTACCCAACCAGCCTCTACACACCATCTCCATCCA
ACCCTACACTCCATATGGGGATTAAA
Found at i:90344103 original size:49 final size:47
Alignment explanation
Indices: 90343835--90344485 Score: 1050
Period size: 47 Copynumber: 13.6 Consensus size: 47
90343825 CCCTTCGGGA
* * * * * *
90343835 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
90343882 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
90343929 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
90343976 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
90344023 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
90344070 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
90344119 CTTATTACATATATACACTTTCACATTCATCACATAGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
90344166 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
90344215 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
90344262 CTTATCATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATC--ACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
90344311 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
90344360 CTTATCACATATATATACAACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATAC-ACTTTCACATTCATCACATCGGCCATTAGGC
*
90344410 CTTATCACATATATATACAATTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
90344459 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
90344486 TATTCAAATA
Statistics
Matches: 572, Mismatches: 23, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
47 293 0.51
49 230 0.40
50 49 0.09
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:90344120 original size:96 final size:96
Alignment explanation
Indices: 90343835--90344485 Score: 1080
Period size: 96 Copynumber: 6.8 Consensus size: 96
90343825 CCCTTCGGGA
* * * * * * *
90343835 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCTTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
90343898 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
90343929 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
90343992 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
90344023 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
90344088 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
90344119 CTTATTACATATATACACTTTCACATTCATCACATAGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
90344184 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
90344215 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCATATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
90344280 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
90344311 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
90344376 ACAACTTTCACATTCATCACATCGGCCATTAGGC
64 AC-ACTTTCACATTCATCACATCGGCCATTAGGC
*
90344410 CTTATCACATATATATACAATTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
90344473 ACACTTTCACATT
64 ACACTTTCACATT
90344486 TATTCAAATA
Statistics
Matches: 530, Mismatches: 22, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
94 141 0.27
96 239 0.45
97 8 0.02
98 55 0.10
99 87 0.16
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:90348512 original size:40 final size:40
Alignment explanation
Indices: 90348480--90348910 Score: 677
Period size: 40 Copynumber: 10.8 Consensus size: 40
90348470 CCAGCATGAT
* * *
90348480 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
90348520 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
90348560 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
90348600 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
90348640 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
90348680 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
90348720 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
90348760 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
90348800 TGCTCTTC-GGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
90348839 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCGCGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
90348879 TGCTTTTCGGGA-TTCAGCCCGGACATATCACT
1 TGCTCTTCGGGACTT-AGCCCGGATATATCACT
90348911 CTCAATTCTC
Statistics
Matches: 363, Mismatches: 26, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
39 41 0.11
40 322 0.89
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:90350442 original size:22 final size:22
Alignment explanation
Indices: 90350415--90350490 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
90350405 TTTCACATTC
90350415 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
**** ** *
90350437 ATCACATATATACACTTTCGCATT
1 ATCACAT-CGGCCA-TTAGGCCTT
90350461 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
90350484 ATCACAT
1 ATCACAT
90350491 ATATACACTT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:90350608 original size:49 final size:47
Alignment explanation
Indices: 90350340--90350987 Score: 1035
Period size: 47 Copynumber: 13.6 Consensus size: 47
90350330 CCCTTCGGGA
* * * * * *
90350340 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
90350387 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
90350434 CTTATCACATATATACACTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
90350481 CTTATCACATATATACACTTTCGCATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
90350528 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
90350575 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
90350624 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
90350671 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
90350720 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
90350767 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
90350814 CTTATCACATATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
90350863 CTTATCACATATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
90350912 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
90350961 CTTATGACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
90350988 TATTCAAATA
Statistics
Matches: 568, Mismatches: 27, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
47 336 0.59
49 232 0.41
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:90350626 original size:96 final size:94
Alignment explanation
Indices: 90350340--90350987 Score: 1035
Period size: 96 Copynumber: 6.8 Consensus size: 94
90350330 CCCTTCGGGA
* * * * * * * *
90350340 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
90350405 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
90350434 CTTATCACATATATACACTTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
90350499 TTTCGCATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
90350528 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* * *
90350593 ACTTTCACATTCATCACATTGGTCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
90350624 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
90350689 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
90350720 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
90350785 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
90350814 CTTATCACATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
*
90350879 ACACTTTCACATTCATCACGTCGGCCATTAGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
90350912 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATGACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
90350977 ACTTTCACATT
64 ACTTTCACATT
90350988 TATTCAAATA
Statistics
Matches: 520, Mismatches: 28, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
94 184 0.35
96 243 0.47
98 93 0.18
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:90357665 original size:26 final size:26
Alignment explanation
Indices: 90357636--90357686 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
90357626 AATAAACAGT
*
90357636 TAATAGAACTAATTAGTCAAATCAGC
1 TAATAGAACCAATTAGTCAAATCAGC
* *
90357662 TAATAGAACCAGTTGGTCAAATCAG
1 TAATAGAACCAATTAGTCAAATCAG
90357687 TCACTACAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (26 bp):
TAATAGAACCAATTAGTCAAATCAGC
Found at i:90360751 original size:21 final size:21
Alignment explanation
Indices: 90360725--90360764 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
90360715 TATGCCAAAT
*
90360725 AGAAGCTCATAAGAGCTGAAC
1 AGAAGCTCACAAGAGCTGAAC
*
90360746 AGAAGCTGACAAGAGCTGA
1 AGAAGCTCACAAGAGCTGA
90360765 TCCACCCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.17, G:0.28, T:0.12
Consensus pattern (21 bp):
AGAAGCTCACAAGAGCTGAAC
Found at i:90363094 original size:35 final size:35
Alignment explanation
Indices: 90363055--90363126 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
90363045 CATCTCCGGA
*
90363055 GCTTGGCAAATATGGAAAGTAATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
* *
90363090 GCTTGGCAAATATGGAAGGGGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
90363125 GC
1 GC
90363127 GATCCTAGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.26
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
Found at i:90368273 original size:35 final size:35
Alignment explanation
Indices: 90368234--90368305 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
90368224 CATCTCCGGA
*
90368234 GCTTGGCAAATATGGAAAGTAATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
* *
90368269 GCTTGGCAAATATGGAAGGGGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
90368304 GC
1 GC
90368306 GATCCTAGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.26
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
Found at i:90369716 original size:29 final size:29
Alignment explanation
Indices: 90369656--90369717 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
90369646 AATTTATAAT
* *
90369656 AAAGCTTTCCAACCATCCTTCAAAAGGAA
1 AAAGCTTTCCAACAATCCTTCAAAAAGAA
* *
90369685 AAAGCTTTCCAATGAATTCTTCAAAAAGAA
1 AAAGCTTTCCAA-CAATCCTTCAAAAAGAA
90369715 AAA
1 AAA
90369718 CAAGAAAAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 12 0.43
30 16 0.57
ACGTcount: A:0.47, C:0.21, G:0.10, T:0.23
Consensus pattern (29 bp):
AAAGCTTTCCAACAATCCTTCAAAAAGAA
Found at i:90372453 original size:29 final size:31
Alignment explanation
Indices: 90372397--90372455 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
90372387 TGACCATGCA
* * *
90372397 TGCTCAAAATTTTCTCCATTTGTCACATGTT
1 TGCTCAAAAATTACTCCATTTGGCACATGTT
90372428 TGCTCAAAAATTACT-C-TTTGGCACATGT
1 TGCTCAAAAATTACTCCATTTGGCACATGT
90372456 ACTCTTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.44
30 1 0.04
31 13 0.52
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (31 bp):
TGCTCAAAAATTACTCCATTTGGCACATGTT
Found at i:90376565 original size:23 final size:23
Alignment explanation
Indices: 90376517--90376567 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
90376507 AATACATTAG
**
90376517 GTAAATTTTCATAAAAATCAGTT
1 GTAAATTTTCATAAAAATCACCT
*
90376540 GTAAATTTTGC-TAAAAATCCCCT
1 GTAAATTTT-CATAAAAATCACCT
90376563 GTAAA
1 GTAAA
90376568 GCTTTGGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (23 bp):
GTAAATTTTCATAAAAATCACCT
Found at i:90382287 original size:37 final size:37
Alignment explanation
Indices: 90382237--90382315 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
90382227 TTATTACAAA
* *
90382237 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
90382274 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
90382311 GTCTT
1 GTCTT
90382316 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:90382512 original size:47 final size:47
Alignment explanation
Indices: 90382434--90382593 Score: 230
Period size: 47 Copynumber: 3.4 Consensus size: 47
90382424 CCCTTCGGGA
* * * * * * *
90382434 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
90382481 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
90382528 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
90382575 CTTATCACATATATACACT
1 CTTATCACATATATACACT
90382594 GTCTTGGCTG
Statistics
Matches: 100, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 100 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:90386035 original size:40 final size:40
Alignment explanation
Indices: 90385978--90386160 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 40
90385968 CCAGCATGAT
* *
90385978 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
90386018 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
90386058 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* * *
90386099 TGC-CTTC-GAATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
90386139 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
90386161 CATCATTCGA
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 2 0.02
40 96 0.82
41 19 0.16
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:90386494 original size:29 final size:29
Alignment explanation
Indices: 90386455--90386533 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
90386445 CTTAATAATC
*
90386455 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
90386485 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
90386514 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
90386534 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:90388488 original size:37 final size:37
Alignment explanation
Indices: 90388438--90388516 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
90388428 TTATTACGAA
* *
90388438 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
90388475 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
90388512 GTCTT
1 GTCTT
90388517 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:90388713 original size:47 final size:47
Alignment explanation
Indices: 90388635--90388841 Score: 297
Period size: 47 Copynumber: 4.4 Consensus size: 47
90388625 CCCTTCGGGA
* * * * * * *
90388635 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
90388682 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
90388729 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
90388776 TTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
90388823 CTTATCACATATATACACT
1 CTTATCACATATATACACT
90388842 GTCTTGGCTG
Statistics
Matches: 143, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 143 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:90392512 original size:32 final size:32
Alignment explanation
Indices: 90392476--90392539 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
90392466 AATTGTATAC
90392476 AACAAAGCTTTTTCTCATAATATGGAATTTAA
1 AACAAAGCTTTTTCTCATAATATGGAATTTAA
90392508 AACAAAGCTTTTTCTCATAATATGGAATTTAA
1 AACAAAGCTTTTTCTCATAATATGGAATTTAA
90392540 CTTCTTTAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (32 bp):
AACAAAGCTTTTTCTCATAATATGGAATTTAA
Found at i:90397639 original size:24 final size:24
Alignment explanation
Indices: 90397607--90397657 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
90397597 GCATCTACGA
90397607 GATGGCTTCAACAAAAGGTAAGTT
1 GATGGCTTCAACAAAAGGTAAGTT
90397631 GATGGCTTCAACAAAAGGTAAGTT
1 GATGGCTTCAACAAAAGGTAAGTT
90397655 GAT
1 GAT
90397658 ATGTAATTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.25
Consensus pattern (24 bp):
GATGGCTTCAACAAAAGGTAAGTT
Found at i:90420015 original size:93 final size:93
Alignment explanation
Indices: 90419905--90420075 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
90419895 GCCCCTAAGT
* * *
90419905 GAACTCGGACTCAACTCAACGAGCTCGGTCGTTCGCATCCATAAATGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
90419970 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
90419998 GAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
90420063 CGAGTTCGGATGC
66 CGAGTTCGGATGC
90420076 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:90420072 original size:46 final size:46
Alignment explanation
Indices: 90419900--90420072 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
90419890 AACCCGCCCC
* * * *
90419900 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGTCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
90419946 TAAATGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
90419994 TCA-CGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
90420039 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
90420073 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.56
47 27 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:90427245 original size:19 final size:20
Alignment explanation
Indices: 90427221--90427258 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
90427211 GGTACCACCA
90427221 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
90427240 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
90427259 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:90427645 original size:93 final size:93
Alignment explanation
Indices: 90427486--90427656 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
90427476 CACCCTAAGT
* * *
90427486 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAATGAACTCTGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
90427551 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
** * * *
90427579 GAACTCGGACTCAACTCAATGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
90427644 CGAGTTCGGATGC
66 CGAGTTCGGATGC
90427657 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:90427649 original size:46 final size:46
Alignment explanation
Indices: 90427481--90427653 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
90427471 TAACCCACCC
* * * * *
90427481 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
90427527 TAAATGAACTCTGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
90427575 TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
90427620 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
90427654 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.56
47 27 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:90430547 original size:30 final size:29
Alignment explanation
Indices: 90430508--90430581 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
90430498 ACACATCATG
* *
90430508 AGCATATAAAAAATGTAAAAGCAAACTGAA
1 AGCAAATAAAAAAT-AAAAAGCAAACTGAA
* *
90430538 AGCAAATAAATAAATAAAAAGCAATCTGGA
1 AGCAAATAAA-AAATAAAAAGCAAACTGAA
90430568 AGCAAATTAAAAAA
1 AGCAAA-TAAAAAA
90430582 AGGCGGATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 30 0.79
31 8 0.21
ACGTcount: A:0.62, C:0.09, G:0.12, T:0.16
Consensus pattern (29 bp):
AGCAAATAAAAAATAAAAAGCAAACTGAA
Found at i:90431797 original size:15 final size:14
Alignment explanation
Indices: 90431777--90431819 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
90431767 TCTGAAATTG
90431777 AAAATATATAAAATA
1 AAAATATA-AAAATA
*
90431792 AAAATATAATTAATA
1 AAAATATAA-AAATA
90431807 AAAATATAAAAAT
1 AAAATATAAAAAT
90431820 TATTTAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 4 0.16
15 21 0.84
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATATAAAAATA
Found at i:90433119 original size:15 final size:15
Alignment explanation
Indices: 90433099--90433128 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
90433089 CATTAACATT
90433099 TTTAAAAGAAAGATG
1 TTTAAAAGAAAGATG
90433114 TTTAAAAGAAAGATG
1 TTTAAAAGAAAGATG
90433129 CAATCTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.20, T:0.27
Consensus pattern (15 bp):
TTTAAAAGAAAGATG
Found at i:90434808 original size:21 final size:21
Alignment explanation
Indices: 90434784--90434826 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
90434774 TTGTTTACTA
90434784 TAATAATA-ATAATTTTTATAT
1 TAATAATATATAA-TTTTATAT
**
90434805 TAATTTTATATAATTTTATAT
1 TAATAATATATAATTTTATAT
90434826 T
1 T
90434827 TAAATCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TAATAATATATAATTTTATAT
Found at i:90434813 original size:11 final size:11
Alignment explanation
Indices: 90434797--90434826 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
90434787 TAATAATAAT
90434797 TTTTATATTAA
1 TTTTATATTAA
90434808 TTTTATA-TAA
1 TTTTATATTAA
90434818 TTTTATATT
1 TTTTATATT
90434827 TAAATCTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTATATTAA
Found at i:90434820 original size:10 final size:10
Alignment explanation
Indices: 90434792--90434825 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
90434782 TATAATAATA
90434792 ATAATTTTTAT
1 ATAA-TTTTAT
90434803 ATTAATTTTAT
1 A-TAATTTTAT
90434814 ATAATTTTAT
1 ATAATTTTAT
90434824 AT
1 AT
90434826 TTAAATCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 11 0.50
11 8 0.36
12 3 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
ATAATTTTAT
Found at i:90437480 original size:31 final size:31
Alignment explanation
Indices: 90437440--90437498 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
90437430 TTTAAATGTG
90437440 TATAATTGAATCAAAATAAAAGTTTCATTTA
1 TATAATTGAATCAAAATAAAAGTTTCATTTA
* * * *
90437471 TATAGTTGAATCACAATCAAATTTTCAT
1 TATAATTGAATCAAAATAAAAGTTTCAT
90437499 AAGTACAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (31 bp):
TATAATTGAATCAAAATAAAAGTTTCATTTA
Found at i:90437868 original size:24 final size:24
Alignment explanation
Indices: 90437818--90437869 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
90437808 TTCGTAGGTC
* **
90437818 AAATAAATTATGCTAATAAATGTT
1 AAATAAATTATACTAATAAATACT
*
90437842 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
90437866 AAAT
1 AAAT
90437870 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:90440623 original size:20 final size:23
Alignment explanation
Indices: 90440584--90440627 Score: 67
Period size: 20 Copynumber: 2.0 Consensus size: 23
90440574 TTAGATAATA
90440584 TGTTTTGATATAACAAATTAAAG
1 TGTTTTGATATAACAAATTAAAG
90440607 TGTTTTGA-AT-A-AAATTAAAG
1 TGTTTTGATATAACAAATTAAAG
90440627 T
1 T
90440628 TGAGCAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.48
21 1 0.05
22 2 0.10
23 8 0.38
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (23 bp):
TGTTTTGATATAACAAATTAAAG
Found at i:90443149 original size:13 final size:13
Alignment explanation
Indices: 90443131--90443155 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90443121 ATTTACAAGA
90443131 TTACATAATCAAT
1 TTACATAATCAAT
90443144 TTACATAATCAA
1 TTACATAATCAA
90443156 ATCCAATCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TTACATAATCAAT
Found at i:90459088 original size:56 final size:56
Alignment explanation
Indices: 90459002--90459121 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
90458992 ACAAGGGATG
90459002 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
**
90459058 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAGCAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
90459114 ATGGGCAA
1 ATGGGCAA
90459122 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:90460481 original size:40 final size:40
Alignment explanation
Indices: 90460250--90460474 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
90460240 TCGAATGATG
* * * * *
90460250 TCCGGGCTAAGTCCCGATGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
90460290 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
90460330 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
90460369 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
90460409 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
90460450 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
90460475 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 119 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:90463437 original size:68 final size:64
Alignment explanation
Indices: 90463248--90463446 Score: 168
Period size: 68 Copynumber: 3.0 Consensus size: 64
90463238 CTAGCCAGTT
* * * * * ** *
90463248 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGATG---TACACATAGCACCATACATACGACCTAGCTACA
90463313 TA
63 TA
* * * * *
90463315 TATCTCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCATCCATGCGACCTAGCTACATCA
1 TATCTCGTAGCTCTCTTGTCTACATGATGTACACATAGCACCATACATACGACCTAGCTACAT-A
* *
90463380 TAATGTCTCGTAGCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACATATGACCTAGCTA
1 T-A--TCTCGTAGCTCTCTTGT-CTACATGATGTACACAT-AGCACCATACATACGACCTAGCTA
90463443 CATA
61 CATA
90463447 CCATCTGTAT
Statistics
Matches: 112, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
64 27 0.24
65 2 0.02
66 1 0.01
67 31 0.28
68 50 0.45
69 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.31
Consensus pattern (64 bp):
TATCTCGTAGCTCTCTTGTCTACATGATGTACACATAGCACCATACATACGACCTAGCTACATA
Found at i:90465050 original size:40 final size:39
Alignment explanation
Indices: 90464986--90465079 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 39
90464976 ATTATGTTCT
* *
90464986 GCACTAAGTGTGCGATTCGAAATAGCTTTAGCTACAAATG
1 GCACTAAGTGTGTGATTCGAAATAGCTTCAGC-ACAAATG
* * ***
90465026 GCACTAAGTGTGTGAGTT-GGAATAGCTTCGGCATGTATG
1 GCACTAAGTGTGTGA-TTCGAAATAGCTTCAGCACAAATG
90465065 GCACTAAGTGTGTGA
1 GCACTAAGTGTGTGA
90465080 AATTGAGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
39 19 0.41
40 25 0.54
41 2 0.04
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (39 bp):
GCACTAAGTGTGTGATTCGAAATAGCTTCAGCACAAATG
Found at i:90471239 original size:25 final size:25
Alignment explanation
Indices: 90471211--90471267 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
90471201 TGTACAAAAT
90471211 AGTCCCTATTAGGGTTTTCATGAGA
1 AGTCCCTATTAGGGTTTTCATGAGA
*
90471236 AGTCCCTATTAGGGTTTTTATGAGA
1 AGTCCCTATTAGGGTTTTCATGAGA
*
90471261 AATCCCT
1 AGTCCCT
90471268 TCACAAAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (25 bp):
AGTCCCTATTAGGGTTTTCATGAGA
Found at i:90475464 original size:40 final size:40
Alignment explanation
Indices: 90475427--90475651 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
90475417 GCTACTCGTT
* *
90475427 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
90475467 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
90475507 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
90475547 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
90475586 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
90475627 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
90475652 CATCATTCGA
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 117 0.72
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:90475611 original size:119 final size:120
Alignment explanation
Indices: 90475429--90475651 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
90475419 TACTCGTTCA
*
90475429 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
90475494 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCACACC
* * **
90475549 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
90475611 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
90475652 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCACACC
Found at i:90476809 original size:56 final size:56
Alignment explanation
Indices: 90476742--90476861 Score: 240
Period size: 56 Copynumber: 2.1 Consensus size: 56
90476732 TATTAGTTTA
90476742 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
90476798 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
90476854 TTGCCCAT
1 TTGCCCAT
90476862 CATCCCTTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:90494758 original size:50 final size:50
Alignment explanation
Indices: 90494682--90494866 Score: 258
Period size: 50 Copynumber: 3.8 Consensus size: 50
90494672 NNNNNNNNNC
90494682 TGATCAGATAAGT-TAGCCGAAGCTATCACTTATCACTTTTCACTGTCAC-
1 TGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC-TTTCACTGTCACT
90494731 TGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC-TT---TGTCACT
1 TGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTGTCACT
* *
90494777 TGATCAGATAAGTATAGCCGAAGCTAT-ACTTATCACTTCCACTTGTCACT
1 TGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCAC-TGTCACT
** *
90494827 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
1 TGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
90494867 GTCACTTGAT
Statistics
Matches: 121, Mismatches: 7, Indels: 14
0.85 0.05 0.10
Matches are distributed among these distances:
45 15 0.12
46 27 0.22
48 2 0.02
49 13 0.11
50 53 0.44
51 11 0.09
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (50 bp):
TGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTGTCACT
Found at i:90494798 original size:46 final size:46
Alignment explanation
Indices: 90494712--90494878 Score: 216
Period size: 46 Copynumber: 3.6 Consensus size: 46
90494702 AGCTATCACT
*
90494712 TATCACTTTTCAC--TGTCAC-TGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
90494755 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
**
90494801 TAT-ACTTATCACTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC-T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
90494851 TACCACTTATCACTTTGTCACTTGATCA
1 TATCACTTATCACTTTGTCACTTGATCA
90494879 AAAGTACTCA
Statistics
Matches: 109, Mismatches: 6, Indels: 15
0.84 0.05 0.12
Matches are distributed among these distances:
43 12 0.11
45 15 0.14
46 41 0.38
50 32 0.29
51 9 0.08
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:90494851 original size:96 final size:95
Alignment explanation
Indices: 90494682--90494878 Score: 317
Period size: 96 Copynumber: 2.1 Consensus size: 95
90494672 NNNNNNNNNC
*
90494682 TGATCAGATAAGTTAGCCGAAGCTATCACTTATCACTTTTCACTGTCACTGATCAGATAAGTGTA
1 TGATCAGATAAGTTAGCCGAAGCTATCACTTATCACTTTCCACTGTCACTGATCAGATAAGTGTA
* *
90494747 GCCGAAGCTATCACTTATCACTTTGTCACT
66 GCCAAAGCTACCACTTATCACTTTGTCACT
90494777 TGATCAGATAAGTATAGCCGAAGCTAT-ACTTATCAC-TTCCACTTGTCACTTGATCAGATAAGT
1 TGATCAGATAAGT-TAGCCGAAGCTATCACTTATCACTTTCCAC-TGTCAC-TGATCAGATAAGT
*
90494840 GTAGCTAAAGCTACCACTTATCACTTTGTCACT
63 GTAGCCAAAGCTACCACTTATCACTTTGTCACT
90494873 TGATCA
1 TGATCA
90494879 AAAGTACTCA
Statistics
Matches: 95, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
94 5 0.05
95 28 0.29
96 62 0.65
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (95 bp):
TGATCAGATAAGTTAGCCGAAGCTATCACTTATCACTTTCCACTGTCACTGATCAGATAAGTGTA
GCCAAAGCTACCACTTATCACTTTGTCACT
Found at i:90498053 original size:49 final size:50
Alignment explanation
Indices: 90497998--90498201 Score: 241
Period size: 49 Copynumber: 4.0 Consensus size: 50
90497988 TTCGTTTTCT
*
90497998 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* * *
90498047 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-TATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* *
90498096 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACAC-G--T---A-ATCACACA-ATCACATAC
* * *
90498154 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACAT
90498202 GTTCACATGT
Statistics
Matches: 136, Mismatches: 10, Indels: 17
0.83 0.06 0.10
Matches are distributed among these distances:
49 74 0.54
50 7 0.05
51 7 0.05
52 1 0.01
55 1 0.01
56 6 0.04
57 1 0.01
58 39 0.29
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
Found at i:90498168 original size:58 final size:59
Alignment explanation
Indices: 90498082--90498200 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
90498072 TACACGAAAT
90498082 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
90498140 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
90498199 CA
1 CA
90498201 TGTTCACATG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 54 0.90
59 6 0.10
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (59 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
Found at i:90498181 original size:28 final size:28
Alignment explanation
Indices: 90498091--90498181 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
90498081 TCACATATCA
90498091 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
* * **
90498119 CTTACACGGAAT-CACATATCACA-CATAT-CA
1 CTTAC-C-G-ATGC-CATAGCCCAGC-TATGGT
90498149 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
90498177 CTTAC
1 CTTAC
90498182 ACGGAATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 12 0.26
28 13 0.28
29 2 0.04
30 8 0.17
31 12 0.26
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (28 bp):
CTTACCGATGCCATAGCCCAGCTATGGT
Found at i:90499513 original size:37 final size:37
Alignment explanation
Indices: 90499452--90499597 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
90499442 TACGTATGAT
* *
90499452 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
90499487 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
90499524 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
90499561 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
90499598 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:90499614 original size:46 final size:46
Alignment explanation
Indices: 90499561--90499829 Score: 322
Period size: 46 Copynumber: 5.6 Consensus size: 46
90499551 TAAGTGTAGC
* **
90499561 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
90499607 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
90499653 CACTTTTCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
90499705 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * ** *
90499751 TACTTCTCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
90499803 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
90499830 AGTACTCAAA
Statistics
Matches: 195, Mismatches: 16, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
46 110 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 81 0.42
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:90499680 original size:52 final size:52
Alignment explanation
Indices: 90499604--90499823 Score: 281
Period size: 52 Copynumber: 4.3 Consensus size: 52
90499594 TAGCTAAAGC
* *
90499604 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* *
90499657 TTTCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
90499709 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * * ** *
90499755 TCTCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
90499807 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
90499824 ATCAGAAGTA
Statistics
Matches: 144, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
46 42 0.29
49 1 0.01
52 84 0.58
53 17 0.12
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:90499741 original size:98 final size:98
Alignment explanation
Indices: 90499561--90499829 Score: 448
Period size: 98 Copynumber: 2.7 Consensus size: 98
90499551 TAAGTGTAGC
* * *
90499561 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
*
90499626 TGATCAGATAAGTATAGCCGAAGCTATCACTTTT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTCT
**
90499660 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
90499725 GATCAGATAAGTATAGCCGAAGCTATTACTTCT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTCT
* *
90499758 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
90499823 GATCAGA
66 GATCAGA
90499830 AGTACTCAAA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 150 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTCT
Found at i:90502656 original size:18 final size:17
Alignment explanation
Indices: 90502633--90502671 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
90502623 ATAAATGAAT
*
90502633 TTAAATTTAAAAAATAA
1 TTAAAATTAAAAAATAA
90502650 TTAAAATTAAAAAA-AA
1 TTAAAATTAAAAAATAA
90502666 TTAAAA
1 TTAAAA
90502672 CCTTAACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAAAATTAAAAAATAA
Found at i:90504126 original size:24 final size:25
Alignment explanation
Indices: 90504091--90504141 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
90504081 ATACATGTTC
90504091 ATAATATATAAAACATACACATAAT
1 ATAATATATAAAACATACACATAAT
**
90504116 ATAATAT-TAAAACATTTACATAAT
1 ATAATATATAAAACATACACATAAT
90504140 AT
1 AT
90504142 GTACACACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (25 bp):
ATAATATATAAAACATACACATAAT
Found at i:90504238 original size:21 final size:21
Alignment explanation
Indices: 90504214--90504253 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
90504204 AAGATATACT
*
90504214 TATATAAATATATATTAAAGA
1 TATATAAATATATAATAAAGA
*
90504235 TATATACATATATAATAAA
1 TATATAAATATATAATAAA
90504254 ATACACGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (21 bp):
TATATAAATATATAATAAAGA
Found at i:90504334 original size:20 final size:21
Alignment explanation
Indices: 90504301--90504342 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
90504291 TGTAGTAAAA
*
90504301 ATAATAATATACATAATATAT
1 ATAATAATACACATAATATAT
*
90504322 ATAA-AATACACATACTATAT
1 ATAATAATACACATAATATAT
90504342 A
1 A
90504343 CGTATATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAATAATACACATAATATAT
Found at i:90506537 original size:89 final size:87
Alignment explanation
Indices: 90506328--90506566 Score: 327
Period size: 89 Copynumber: 2.7 Consensus size: 87
90506318 TGGCATGTGA
* *
90506328 TCCTGAGGTTCAACTCACCTCTCGTAATATGAGTTCATTTTTGAAAAGCATAAATTGAAAAAAAC
1 TCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGCATAAATTG-AAAAAAC
** **
90506393 ATTAATTGAAAATACCTCAGCGT
65 AGAAACCGAAAATACCTCAGCGT
* * *
90506416 TCCTCGAGGCTCAACTCATCTCTTGTAATATGAGTTGATTTTTGAAAAGCGTAAATTGAAAAAAC
1 TCCT-GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAAAC
90506481 AGAAACCGAAAATACCTCAGCGT
65 AGAAACCGAAAATACCTCAGCGT
* *
90506504 GTCCTGAGGCTCAACTCACCTCTCGCAATTATGAGTTGATTTTTGACAAA-CATCAATTGAAAA
1 -TCCTGAGGCTCAACTCACCTCTCGTAA-TATGAGTTGATTTTTGA-AAAGCATAAATTGAAAA
90506567 TACCTCAGCG
Statistics
Matches: 133, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
88 50 0.38
89 80 0.60
90 3 0.02
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (87 bp):
TCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAAACA
GAAACCGAAAATACCTCAGCGT
Found at i:90506598 original size:74 final size:73
Alignment explanation
Indices: 90506488--90506639 Score: 241
Period size: 74 Copynumber: 2.1 Consensus size: 73
90506478 AACAGAAACC
* * * *
90506488 GAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATTATGAGTTGATTTTTGACAA
1 GAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAA-TATGAGTTGATTTTTGAAAA
*
90506553 ACATCAATT
65 ACATAAATT
90506562 GAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTGAAAAA
1 GAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTGAAAAA
90506627 CATAAATT
66 CATAAATT
*
90506635 AAAAA
1 GAAAA
90506640 ACGGAAATCG
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
73 31 0.43
74 41 0.57
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (73 bp):
GAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTGAAAAA
CATAAATT
Found at i:90506711 original size:162 final size:163
Alignment explanation
Indices: 90506396--90506954 Score: 792
Period size: 162 Copynumber: 3.4 Consensus size: 163
90506386 AAAAAACATT
* * * * *
90506396 AATTGAAAATACCTCAGCGTTCCTCGAGGCTCAACTCATCTCTTGTAA-TATGAGTTGA-TTTTT
1 AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATTATGAGTTGATTTTTT
*
90506459 GAAAAGCGTAAATTGAAAAAACAGAAACCGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACC
66 GAAAAGCGTAAATTGAAAAAACAGAAATCGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACC
*
90506524 TCTCGCAATTATGAGTTGA--TTTTTGACAAACATC
131 TCTCGCAA-TATGAGTTGATTTTTTTGA-AAACA-G
*
90506558 AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAA-TATGAGTTGA-TTTTT
1 AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATTATGAGTTGATTTTTT
* * * *
90506621 GAAAAACATAAATT-AAAAAACGGAAATCGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACC
66 GAAAAGCGTAAATTGAAAAAACAGAAATCGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACC
90506685 TCTCGCAATATGAGTTGATTTTTTTGAAAAGCAG
131 TCTCGCAATATGAGTTGATTTTTTTGAAAA-CAG
* * *
90506719 ACATTGAAACTACCTCAGCGTGCCCTGAGGCTCAACTCACCTTTCGCAATTATGAGTTGATTTCT
1 A-ATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATTATGAGTTGA-TT-T
** *
90506784 TTTG-AAAGCGTAAATTGAAAAAACATCAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTC
63 TTTGAAAAGCGTAAATTGAAAAAACAGAAATCGAAAATACCTCAGCGTGTCCTGAGGCTCAACTC
**
90506848 ACCTCTCGCAATATGAGTTGATTTTTTTGAAAGTAG
128 ACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAG
* *
90506884 AATTTGAAAATACCTCGGCGAGCCCCGAGGCTCAACTCACCTCTCGCAATTATGAGTTGATTTTT
1 AA-TTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATTATGAGTTGATTTTT
90506949 TGAAAA
65 TGAAAA
90506955 CAGAAATGAA
Statistics
Matches: 356, Mismatches: 30, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
160 10 0.03
161 59 0.17
162 121 0.34
163 15 0.04
164 6 0.02
165 66 0.19
166 79 0.22
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.28
Consensus pattern (163 bp):
AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATTATGAGTTGATTTTTT
GAAAAGCGTAAATTGAAAAAACAGAAATCGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACC
TCTCGCAATATGAGTTGATTTTTTTGAAAACAG
Found at i:90506948 original size:74 final size:74
Alignment explanation
Indices: 90506813--90506953 Score: 230
Period size: 74 Copynumber: 1.9 Consensus size: 74
90506803 AAAACATCAA
* * *
90506813 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
1 TTGAAAATACCTCAGCGAGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
90506878 AAGTAGAAT
66 AAGTAGAAT
*
90506887 TTGAAAATACCTCGGCGAGCCCCGAGGCTCAACTCACCTCTCGCAATTATGAGTTGA-TTTTTTG
1 TTGAAAATACCTCAGCGAGCCCCGAGGCTCAACTCACCTCTCGCAA-TATGAGTTGATTTTTTTG
90506951 AAA
65 AAA
90506954 ACAGAAATGA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
74 52 0.84
75 10 0.16
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (74 bp):
TTGAAAATACCTCAGCGAGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
AAGTAGAAT
Found at i:90519357 original size:21 final size:21
Alignment explanation
Indices: 90519333--90519372 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
90519323 AAGATATACT
*
90519333 TATATAAATATATATTAAAGA
1 TATATAAATATATAATAAAGA
*
90519354 TATATACATATATAATAAA
1 TATATAAATATATAATAAA
90519373 ATACACGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (21 bp):
TATATAAATATATAATAAAGA
Found at i:90519449 original size:20 final size:21
Alignment explanation
Indices: 90519421--90519462 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
90519411 GTATAGTAAA
*
90519421 ATAATAATATACATAATATAT
1 ATAATAATACACATAATATAT
*
90519442 ATAA-AATACACATACTATAT
1 ATAATAATACACATAATATAT
90519462 A
1 A
90519463 CGTATATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAATAATACACATAATATAT
Found at i:90519599 original size:24 final size:24
Alignment explanation
Indices: 90519571--90519619 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
90519561 ATCTATGTGC
*
90519571 ATAAATAGAATATACTATTATAAT
1 ATAAATAGAATATACTATTAAAAT
* *
90519595 ATAAATATAATATATTATTAAAAT
1 ATAAATAGAATATACTATTAAAAT
90519619 A
1 A
90519620 CAAAACAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
ATAAATAGAATATACTATTAAAAT
Found at i:90533639 original size:75 final size:71
Alignment explanation
Indices: 90533502--90533640 Score: 176
Period size: 75 Copynumber: 1.9 Consensus size: 71
90533492 AAAAAAATTG
*
90533502 AAATACTCAGGTTCCGAGGCTCACTCACCTTCGCAATATGAGTTGATTTTAAACTAATTGAAAAC
1 AAATACTCAGGTTCCGAGGCTCACTCACCTTCGCAATATGAGTTGATTTTAAACCAATTGAAAAC
90533567 GAATGA
66 GAATGA
*
90533573 AAATACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGC-ATATG-GTTGATTTTGCAAACCAA-
1 AAATA-CTCAG-GT-TCCGAGGCTC-ACTCACCT-TCGCAATATGAGTTGATTTT--AAACCAAT
90533635 TGAAAA
59 TGAAAA
90533641 TACCAGGGCT
Statistics
Matches: 59, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
71 5 0.08
72 5 0.08
73 2 0.03
74 18 0.31
75 19 0.32
76 10 0.17
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.27
Consensus pattern (71 bp):
AAATACTCAGGTTCCGAGGCTCACTCACCTTCGCAATATGAGTTGATTTTAAACCAATTGAAAAC
GAATGA
Found at i:90533763 original size:64 final size:63
Alignment explanation
Indices: 90533648--90533948 Score: 245
Period size: 64 Copynumber: 4.7 Consensus size: 63
90533638 AAATACCAGG
* *
90533648 GCTCAACTCACCTCCGCATATGAG-TGATTTTCT-AAAA-AAA--AAAAATACCTCAGTGT-CTG
1 GCTCAACT--CCTTCGCATATGAGTTGATTTT-TGAAAAGAAATTGAAAATACCTCAGTGTCCTG
90533707 A
63 A
*
90533708 GGCTCAACTCCTTCGCATATGAGTTGA-TTTTGAAAGCAGAAATTGAAAATACCTCAG-GTGCTG
1 -GCTCAACTCCTTCGCATATGAGTTGATTTTTGAAA--AGAAATTGAAAATACCTCAGTGTCCTG
90533771 A
63 A
*
90533772 GCTCAACTCAC-TCGCAATATGAGTTGATTTTTGAAAAACAAATTGAAAATACCTCAGCGTGTCC
1 GCTCAACTC-CTTCGC-ATATGAGTTGATTTTTG-AAAAGAAATTGAAAATACCTCA--GTGTCC
90533836 TGA
61 TGA
* * *
90533839 GCTCAACTCACCTCTCGCATATGAGTTGATTTTTTG-AAAGTAATTGAAAATA-CTCGGCGTCC-
1 GCTCAACT--CCT-TCGCATATGAGTTGA-TTTTTGAAAAGAAATTGAAAATACCTCAGTGTCCT
90533901 GA
62 GA
* * *
90533903 GGCTCAACTCACCTC-CAT-T-AGTTGATTTTTTGAAAACAAAATGAAA
1 -GCTCAACTC-CTTCGCATATGAGTTGA-TTTTTGAAAAGAAATTGAAA
90533949 CATCACATAC
Statistics
Matches: 205, Mismatches: 12, Indels: 46
0.78 0.05 0.17
Matches are distributed among these distances:
58 1 0.00
59 19 0.09
60 16 0.08
61 20 0.10
62 6 0.03
63 18 0.09
64 49 0.24
65 18 0.09
66 4 0.02
67 17 0.08
68 15 0.07
69 12 0.06
70 10 0.05
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (63 bp):
GCTCAACTCCTTCGCATATGAGTTGATTTTTGAAAAGAAATTGAAAATACCTCAGTGTCCTGA
Found at i:90546078 original size:24 final size:25
Alignment explanation
Indices: 90546043--90546093 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
90546033 ATACATGTTC
90546043 ATAATATATAAAACATACACATAAT
1 ATAATATATAAAACATACACATAAT
**
90546068 ATAATAT-TAAAACATTTACATAAT
1 ATAATATATAAAACATACACATAAT
90546092 AT
1 AT
90546094 GTACACACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (25 bp):
ATAATATATAAAACATACACATAAT
Found at i:90546190 original size:21 final size:21
Alignment explanation
Indices: 90546166--90546205 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
90546156 AAGATATACT
*
90546166 TATATAAATATATATTAAAGA
1 TATATAAATATATAATAAAGA
*
90546187 TATATACATATATAATAAA
1 TATATAAATATATAATAAA
90546206 ATACACGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (21 bp):
TATATAAATATATAATAAAGA
Found at i:90546282 original size:20 final size:21
Alignment explanation
Indices: 90546254--90546295 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
90546244 GTATAGTAAA
*
90546254 ATAATAATATACATAATATAT
1 ATAATAATACACATAATATAT
*
90546275 ATAA-AATACACATACTATAT
1 ATAATAATACACATAATATAT
90546295 A
1 A
90546296 CGTATATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAATAATACACATAATATAT
Found at i:90547967 original size:10 final size:10
Alignment explanation
Indices: 90547952--90547977 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
90547942 AGAATTTGGG
90547952 TTTTTTTTAT
1 TTTTTTTTAT
90547962 TTTTTTTTAT
1 TTTTTTTTAT
90547972 TTTTTT
1 TTTTTT
90547978 AATTGGATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:90549825 original size:157 final size:160
Alignment explanation
Indices: 90549556--90549972 Score: 468
Period size: 158 Copynumber: 2.6 Consensus size: 160
90549546 AACTGAGAAC
* * * * *
90549556 AAAAATTAGAACCCTAAATTAAATTTAAATA-ATTTGTAATTGACATTAAAAAAGTGTTTACGAT
1 AAAAATCAGAACCC-AAATTAGATTTAAATATTTTTGAAATTAACATTAAAAAAGTGTTTACGAT
* * * * **
90549620 ATACCTGTGATCCAGCTGTGTTAGGTTGAATGCATGGTATTCTATTGTTCTTTTTTTGGCTTTTA
65 ATACCTGTGATCCAGTTGTGTTAGGTTGAATGCATAGTATTCTATTGTTATTTTTTGGGCTTCGA
* *
90549685 ATTCGT-GTACTCGTACCAAATTAAAACC-TA
130 ATTC-TCGTACTCGTACCAAACTAAAACCAAA
* * * *
90549715 AAAAATCAGAACCCAAATTAGATTAAAATATTTTTG-AATTTACATTAAAATAGTGTATACGATA
1 AAAAATCAGAACCCAAATTAGATTTAAATATTTTTGAAATTAACATTAAAAAAGTGTTTACGATA
* * * * *
90549779 TACC-GTGATCCAGTTGTATTAGGCTGAATGCTTAGTGTTAC-GTTGTTATTTTTTGGGCTTCGA
66 TACCTGTGATCCAGTTGTGTTAGGTTGAATGCATAGTATT-CTATTGTTATTTTTTGGGCTTCGA
* * *
90549842 GTTCTCGTACTCGTACTAGACTAAAACCAAA
130 ATTCTCGTACTCGTACCAAACTAAAACCAAA
* * * * *
90549873 AAAAATCAGAACCCAAATTAGATTTTAATATTTTGGAAATAAAAAATGAAAAAAGTGTTTACGAT
1 AAAAATCAGAACCCAAATTAGATTTAAATATTTTTGAAAT-TAACATTAAAAAAGTGTTTACGAT
* *
90549938 ATACCTGTGTTCCTGTTGTGTTAGGTTGAATGCAT
65 ATACCTGTGATCCAGTTGTGTTAGGTTGAATGCAT
90549973 GATCTTTTGT
Statistics
Matches: 214, Mismatches: 37, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
156 1 0.00
157 68 0.32
158 78 0.36
159 20 0.09
160 23 0.11
161 24 0.11
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (160 bp):
AAAAATCAGAACCCAAATTAGATTTAAATATTTTTGAAATTAACATTAAAAAAGTGTTTACGATA
TACCTGTGATCCAGTTGTGTTAGGTTGAATGCATAGTATTCTATTGTTATTTTTTGGGCTTCGAA
TTCTCGTACTCGTACCAAACTAAAACCAAA
Found at i:90551807 original size:26 final size:26
Alignment explanation
Indices: 90551771--90551880 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
90551761 TGATACAAAT
90551771 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
90551797 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
90551823 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
90551849 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
90551875 TGATAA
1 TGATAA
90551881 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:90553541 original size:27 final size:27
Alignment explanation
Indices: 90553500--90553640 Score: 176
Period size: 27 Copynumber: 5.2 Consensus size: 27
90553490 GAGGAAGCGT
*
90553500 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
90553527 TCTGGTGGCTTTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
90553554 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
90553581 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
90553609 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
90553635 TCTGGT
1 TCTGGT
90553641 AGCCATGCTG
Statistics
Matches: 102, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
26 6 0.06
27 81 0.79
28 15 0.15
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:90553585 original size:54 final size:55
Alignment explanation
Indices: 90553500--90553640 Score: 196
Period size: 54 Copynumber: 2.6 Consensus size: 55
90553490 GAGGAAGCGT
* * * *
90553500 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTTTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
90553554 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
90553609 TCTGGTGACTCTGTCACAT-TATCTGTTCTGGT
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGT
90553641 AGCCATGCTG
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 60 0.77
55 18 0.23
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:90558784 original size:401 final size:401
Alignment explanation
Indices: 90558041--90558841 Score: 1593
Period size: 401 Copynumber: 2.0 Consensus size: 401
90558031 CTCCGAATAA
90558041 CAACCCCTAACCCAATGCAATGCAACATACAATGGATGATATGCTATTGTGTAATTTCAGTACAT
1 CAACCCCTAACCCAATGCAATGCAACATACAATGGATGATATGCTATTGTGTAATTTCAGTACAT
90558106 ATATTCAGTTAAGTTATTAACATACTCATTACAGATATCATTTAGTCAATTTCACACATTTAGGT
66 ATATTCAGTTAAGTTATTAACATACTCATTACAGATATCATTTAGTCAATTTCACACATTTAGGT
90558171 GCCTAAGTAGCGCTTACCGACCTTACAGTAGGTTCATAGTCGGCTTAGGCGACCCGTGCAACCTT
131 GCCTAAGTAGCGCTTACCGACCTTACAGTAGGTTCATAGTCGGCTTAGGCGACCCGTGCAACCTT
*
90558236 AGAAACATTTCAGTAACTATGGGCTCACACCCATGTGATCTGTCCGTGTTGGCCCACACGCCCGT
196 AGAAACATTTCAGTAAATATGGGCTCACACCCATGTGATCTGTCCGTGTTGGCCCACACGCCCGT
90558301 GTGACCCACTCGACCCAAATTGGCCTTGGCTGTGTGATCCATTTCTAATGTACCCCATGCTAGCT
261 GTGACCCACTCGACCCAAATTGGCCTTGGCTGTGTGATCCATTTCTAATGTACCCCATGCTAGCT
90558366 AAATATTCATATATGTTTTCACTATTTACTTATATGTTCATTCAAAGTTGTCTACTTGAGTCATT
326 AAATATTCATATATGTTTTCACTATTTACTTATATGTTCATTCAAAGTTGTCTACTTGAGTCATT
90558431 GTCACTAAATG
391 GTCACTAAATG
90558442 CAACCCCTAACCCAATGCAATGCAACATACAATGGATGATATGCTATTGTGTAATTTCAGTACAT
1 CAACCCCTAACCCAATGCAATGCAACATACAATGGATGATATGCTATTGTGTAATTTCAGTACAT
90558507 ATATTCAGTTAAGTTATTAACATACTCATTACAGATATCATTTAGTCAATTTCACACATTTAGGT
66 ATATTCAGTTAAGTTATTAACATACTCATTACAGATATCATTTAGTCAATTTCACACATTTAGGT
90558572 GCCTAAGTAGCGCTTACCGACCTTACAGTAGGTTCATAGTCGGCTTAGGCGACCCGTGCAACCTT
131 GCCTAAGTAGCGCTTACCGACCTTACAGTAGGTTCATAGTCGGCTTAGGCGACCCGTGCAACCTT
90558637 AGAAACATTTCAGTAAATATGGGCTCACACCCATGTGATCTGTCCGTGTTGGCCCACACGCCCGT
196 AGAAACATTTCAGTAAATATGGGCTCACACCCATGTGATCTGTCCGTGTTGGCCCACACGCCCGT
90558702 GTGACCCACTCGACCCAAATTGGCCTTGGCTGTGTGATCCATTTCTAATGTACCCCATGCTAGCT
261 GTGACCCACTCGACCCAAATTGGCCTTGGCTGTGTGATCCATTTCTAATGTACCCCATGCTAGCT
90558767 AAATATTCATATATGTTTTCACTATTTACTTATATGTTCATTCAAAGTTGTCTACTTGAGTCATT
326 AAATATTCATATATGTTTTCACTATTTACTTATATGTTCATTCAAAGTTGTCTACTTGAGTCATT
90558832 GTCACTAAAT
391 GTCACTAAAT
90558842 TATTTATATC
Statistics
Matches: 399, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
401 399 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (401 bp):
CAACCCCTAACCCAATGCAATGCAACATACAATGGATGATATGCTATTGTGTAATTTCAGTACAT
ATATTCAGTTAAGTTATTAACATACTCATTACAGATATCATTTAGTCAATTTCACACATTTAGGT
GCCTAAGTAGCGCTTACCGACCTTACAGTAGGTTCATAGTCGGCTTAGGCGACCCGTGCAACCTT
AGAAACATTTCAGTAAATATGGGCTCACACCCATGTGATCTGTCCGTGTTGGCCCACACGCCCGT
GTGACCCACTCGACCCAAATTGGCCTTGGCTGTGTGATCCATTTCTAATGTACCCCATGCTAGCT
AAATATTCATATATGTTTTCACTATTTACTTATATGTTCATTCAAAGTTGTCTACTTGAGTCATT
GTCACTAAATG
Found at i:90559617 original size:30 final size:30
Alignment explanation
Indices: 90559581--90559640 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
90559571 AATTTCGGCA
90559581 GGAACTCGACTAAAAGCCTAACAAAACCCT
1 GGAACTCGACTAAAAGCCTAACAAAACCCT
90559611 GGAACTCGACTAAAAGCCTAACAAAACCCT
1 GGAACTCGACTAAAAGCCTAACAAAACCCT
90559641 TACTTCGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.30, G:0.13, T:0.13
Consensus pattern (30 bp):
GGAACTCGACTAAAAGCCTAACAAAACCCT
Found at i:90564132 original size:9 final size:9
Alignment explanation
Indices: 90564118--90564148 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
90564108 CTAAGGTATC
90564118 GTGTTAAAT
1 GTGTTAAAT
90564127 GTGTTAAAT
1 GTGTTAAAT
90564136 GTGTTAAAT
1 GTGTTAAAT
90564145 GTGT
1 GTGT
90564149 ATCGTCCTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (9 bp):
GTGTTAAAT
Found at i:90567326 original size:161 final size:161
Alignment explanation
Indices: 90567141--90567476 Score: 645
Period size: 161 Copynumber: 2.1 Consensus size: 161
90567131 TGTGTCAATA
*
90567141 CACATGGCTGTGTGCTTTTCGGGAATTAAGGTTTTCGGACGGTTTTGGGCATCACATGGCCGTGT
1 CACATGACTGTGTGCTTTTCGGGAATTAAGGTTTTCGGACGGTTTTGGGCATCACATGGCCGTGT
90567206 GACCGATTTGGGGAAAATAGTTGATTTTCACATGGCCGTGTCCCCTAAGCACACGGGTGTGTGAG
66 GACCGATTTGGGGAAAATAGTTGATTTTCACATGGCCGTGTCCCCTAAGCACACGGGTGTGTGAG
*
90567271 TTTGGGAATTAGGGTTTGAGTGTCTTGGTGC
131 TTTAGGAATTAGGGTTTGAGTGTCTTGGTGC
90567302 CACATGACTGTGTGCTTTTCGGGAATTAAGGTTTTCGGACGGTTTTGGGCATCACATGGCCGTGT
1 CACATGACTGTGTGCTTTTCGGGAATTAAGGTTTTCGGACGGTTTTGGGCATCACATGGCCGTGT
*
90567367 GACCGATTTGGGGAAAATAGTTGATTTTCACATGGCCGTGTCCCCTAGGCACACGGGTGTGTGAG
66 GACCGATTTGGGGAAAATAGTTGATTTTCACATGGCCGTGTCCCCTAAGCACACGGGTGTGTGAG
90567432 TTTAGGAATTAGGGTTTGAGTGTCTTGGTGC
131 TTTAGGAATTAGGGTTTGAGTGTCTTGGTGC
90567463 CACATGACTGTGTG
1 CACATGACTGTGTG
90567477 GCTAATTTGG
Statistics
Matches: 172, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
161 172 1.00
ACGTcount: A:0.18, C:0.17, G:0.32, T:0.32
Consensus pattern (161 bp):
CACATGACTGTGTGCTTTTCGGGAATTAAGGTTTTCGGACGGTTTTGGGCATCACATGGCCGTGT
GACCGATTTGGGGAAAATAGTTGATTTTCACATGGCCGTGTCCCCTAAGCACACGGGTGTGTGAG
TTTAGGAATTAGGGTTTGAGTGTCTTGGTGC
Found at i:90567676 original size:21 final size:21
Alignment explanation
Indices: 90567650--90567722 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
90567640 GTACCTGGTC
*
90567650 CACACGGGCGTGTGCTTTAGT
1 CACACGGGCATGTGCTTTAGT
* * *
90567671 CACACGGTCATGTGCCTCTATT
1 CACACGGGCATGTG-CTTTAGT
* * *
90567693 CACACGAGCATGTGCCTTAGC
1 CACACGGGCATGTGCTTTAGT
90567714 CACACGGGC
1 CACACGGGC
90567723 GTGTACCCCT
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
21 23 0.57
22 17 0.43
ACGTcount: A:0.19, C:0.32, G:0.26, T:0.23
Consensus pattern (21 bp):
CACACGGGCATGTGCTTTAGT
Found at i:90570892 original size:23 final size:22
Alignment explanation
Indices: 90570866--90570910 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
90570856 CGAGTGTGTG
*
90570866 CCTCAATCACACGGCCTTGTGCC
1 CCTC-ATCACACGGCCGTGTGCC
* *
90570889 CCTCTTCACACGGGCGTGTGCC
1 CCTCATCACACGGCCGTGTGCC
90570911 TCAGCCACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.13, C:0.42, G:0.22, T:0.22
Consensus pattern (22 bp):
CCTCATCACACGGCCGTGTGCC
Found at i:90575000 original size:20 final size:24
Alignment explanation
Indices: 90574951--90575002 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
90574941 AATAAAAATT
90574951 TTTAAAATATAATAAATCAAATGCA
1 TTTAAAATATAATAAATCAAAT-CA
90574976 TTTAAAATATAA-AAA-CAAAT-A
1 TTTAAAATATAATAAATCAAATCA
90574997 -TTAAAA
1 TTTAAAA
90575003 CAAAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.22
21 1 0.04
23 5 0.19
24 3 0.11
25 12 0.44
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.31
Consensus pattern (24 bp):
TTTAAAATATAATAAATCAAATCA
Found at i:90575173 original size:15 final size:15
Alignment explanation
Indices: 90575153--90575182 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
90575143 TAAAAACAAC
*
90575153 AAAAAAAAGTAAAGT
1 AAAAAAAACTAAAGT
90575168 AAAAAAAACTAAAGT
1 AAAAAAAACTAAAGT
90575183 TACTTAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.03, G:0.10, T:0.13
Consensus pattern (15 bp):
AAAAAAAACTAAAGT
Found at i:90576680 original size:74 final size:74
Alignment explanation
Indices: 90576559--90576706 Score: 253
Period size: 74 Copynumber: 2.0 Consensus size: 74
90576549 AAAGTGCTCT
* *
90576559 AAAATTATATCCCACATTATGTGAAATAGAAGGTTTAACTGAAGATGAGC-GCTATCGCGCATTG
1 AAAATTACATCCAACATTATGTGAAATAGAAGGTTTAACTGAAGATGA-CTGCTATCGCGCATTG
90576623 AACAAAATTC
65 AACAAAATTC
*
90576633 AAAATTACATCCAACATTATGTGAAGTAGAAGGTTTAACTGAAGATGACTGCTATCGCGCATTGA
1 AAAATTACATCCAACATTATGTGAAATAGAAGGTTTAACTGAAGATGACTGCTATCGCGCATTGA
90576698 ACAAAATTC
66 ACAAAATTC
90576707 TAGATCATCC
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
73 1 0.01
74 69 0.99
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (74 bp):
AAAATTACATCCAACATTATGTGAAATAGAAGGTTTAACTGAAGATGACTGCTATCGCGCATTGA
ACAAAATTC
Found at i:90577182 original size:22 final size:20
Alignment explanation
Indices: 90577143--90577183 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
90577133 ATTTCTATAG
*
90577143 TATTATATATAATGATTTTT
1 TATTATATATAATAATTTTT
90577163 TATTCATATAATAATAATTTT
1 TATT-ATAT-ATAATAATTTT
90577184 ATTAAGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 4 0.22
22 10 0.56
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TATTATATATAATAATTTTT
Found at i:90577196 original size:32 final size:32
Alignment explanation
Indices: 90577160--90577236 Score: 79
Period size: 32 Copynumber: 2.5 Consensus size: 32
90577150 TATAATGATT
*
90577160 TTTTATTCATATAATA-ATAATTTTATTAAGAA
1 TTTTATT-AAATAATATATAATTTTATTAAGAA
* *
90577192 TTTTATTAAATTATATATTATTTTATT-A-AA
1 TTTTATTAAATAATATATAATTTTATTAAGAA
* *
90577222 TTATATTTAATAATA
1 TTTTATTAAATAATA
90577237 ATTATGTTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
30 14 0.37
31 7 0.18
32 17 0.45
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (32 bp):
TTTTATTAAATAATATATAATTTTATTAAGAA
Found at i:90577205 original size:20 final size:21
Alignment explanation
Indices: 90577182--90577225 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
90577172 AATAATAATT
90577182 TTATTA-AGAATTTTATTAAA
1 TTATTATAGAATTTTATTAAA
**
90577202 TTA-TATATTATTTTATTAAA
1 TTATTATAGAATTTTATTAAA
90577222 TTAT
1 TTAT
90577226 ATTTAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TTATTATAGAATTTTATTAAA
Found at i:90577276 original size:58 final size:58
Alignment explanation
Indices: 90577171--90577308 Score: 176
Period size: 58 Copynumber: 2.4 Consensus size: 58
90577161 TTTATTCATA
* *
90577171 TAATAATAATTTTATTAAGAATTTTATTAAATTATATATTATTTTATTAAATTATATT
1 TAATAATAATTATATTAAGAATTATATTAAATTATATATTATTTTATTAAATTATATT
* * *
90577229 TAATAATAATTATGTTAA-AA-TATAGTTAAATTATTTATTATTTTTATTAAATTATTTT
1 TAATAATAATTATATTAAGAATTATA-TTAAATTATATATTA-TTTTATTAAATTATATT
90577287 TAATAATAATCT-TATTAA-AATT
1 TAATAATAAT-TATATTAAGAATT
90577309 TAATAACAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
56 3 0.04
57 16 0.23
58 49 0.70
59 2 0.03
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (58 bp):
TAATAATAATTATATTAAGAATTATATTAAATTATATATTATTTTATTAAATTATATT
Found at i:90591265 original size:29 final size:28
Alignment explanation
Indices: 90591224--90591288 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 28
90591214 AAAGATATTT
90591224 TTAATTAAAAAATATA-TAT-TATATTATA
1 TTAATTAAAAAATA-AGTATGT-TATTATA
*
90591252 TTAACTTAATAAATAAGTATGTTATTATA
1 TTAA-TTAAAAAATAAGTATGTTATTATA
90591281 TTATATTA
1 TTA-ATTA
90591289 TTATTAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
28 5 0.16
29 25 0.78
30 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (28 bp):
TTAATTAAAAAATAAGTATGTTATTATA
Found at i:90591422 original size:8 final size:8
Alignment explanation
Indices: 90591409--90591456 Score: 68
Period size: 8 Copynumber: 6.5 Consensus size: 8
90591399 AAGATATTTA
90591409 ATATTATT
1 ATATTATT
90591417 ATATTATT
1 ATATTATT
90591425 ATATTATT
1 ATATTATT
90591433 ATATTA--
1 ATATTATT
90591439 A-A-TATT
1 ATATTATT
90591445 ATATTATT
1 ATATTATT
90591453 ATAT
1 ATAT
90591457 AAAATAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
4 2 0.06
5 1 0.03
6 2 0.06
7 1 0.03
8 30 0.83
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
ATATTATT
Found at i:90591446 original size:20 final size:20
Alignment explanation
Indices: 90591421--90591462 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
90591411 ATTATTATAT
*
90591421 TATTATATTATTATATTAAA
1 TATTATATTATTATATAAAA
90591441 TATTATATTATTATATAAAA
1 TATTATATTATTATATAAAA
90591461 TA
1 TA
90591463 AATAAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TATTATATTATTATATAAAA
Found at i:90591468 original size:28 final size:28
Alignment explanation
Indices: 90591413--90591470 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
90591403 TATTTAATAT
* * *
90591413 TATTATATTATTATATTATTATATTAAA
1 TATTATATTATTATATAAATATAATAAA
90591441 TATTATATTATTATATAAA-ATAAATAAA
1 TATTATATTATTATATAAATAT-AATAAA
90591469 TA
1 TA
90591471 AAAGAAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 2 0.08
28 24 0.92
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (28 bp):
TATTATATTATTATATAAATATAATAAA
Found at i:90591524 original size:4 final size:4
Alignment explanation
Indices: 90591515--90591564 Score: 52
Period size: 4 Copynumber: 12.8 Consensus size: 4
90591505 ACAGAGAAGA
*
90591515 AAAG AAAG AAAG AAAGGG AAAG AAAG AAA- AAAA AAAG AAA- AAA- AAAG
1 AAAG AAAG AAAG AAA--G AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
90591562 AAA
1 AAA
90591565 ATTAGGGTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
3 9 0.22
4 28 0.68
6 4 0.10
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:90591553 original size:11 final size:11
Alignment explanation
Indices: 90591537--90591565 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
90591527 AAAGGGAAAG
90591537 AAAGAAAAAAA
1 AAAGAAAAAAA
90591548 AAAG-AAAAAA
1 AAAGAAAAAAA
90591558 AAAGAAAA
1 AAAGAAAA
90591566 TTAGGGTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAA
Found at i:90591555 original size:10 final size:10
Alignment explanation
Indices: 90591514--90591565 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
90591504 AACAGAGAAG
90591514 AAAAGAAAGAA
1 AAAAGAAA-AA
**
90591525 AGAAAGGGAAA
1 A-AAAGAAAAA
*
90591536 GAAAGAAAAAA
1 AAAAG-AAAAA
90591547 AAAAGAAAAA
1 AAAAGAAAAA
90591557 AAAAGAAAA
1 AAAAGAAAA
90591566 TTAGGGTTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
10 18 0.55
11 10 0.30
12 5 0.15
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:90593987 original size:67 final size:67
Alignment explanation
Indices: 90593876--90594061 Score: 313
Period size: 67 Copynumber: 2.8 Consensus size: 67
90593866 AACACTTAGT
* * * *
90593876 ACCACCCATGTGACCTAGC--CATTTTATCTCGTTGCTCTCTTGTCTACATGGTGTCCTTCACTT
1 ACCACACATGCGACCTAGCTACA-TTTATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTT
90593939 GGA
65 GGA
90593942 ACCACACATGCGACCTAGCTACATTTATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
1 ACCACACATGCGACCTAGCTACATTTATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
90594007 GA
66 GA
90594009 ACCACACATGCGACCTAGCTACATTTATCCCGTAGCTCTCTTGTCTACATGGT
1 ACCACACATGCGACCTAGCTACATTTATCCCGTAGCTCTCTTGTCTACATGGT
90594062 ATACATCCCG
Statistics
Matches: 114, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
66 17 0.15
67 95 0.83
68 2 0.02
ACGTcount: A:0.20, C:0.31, G:0.16, T:0.33
Consensus pattern (67 bp):
ACCACACATGCGACCTAGCTACATTTATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
GA
Found at i:90594877 original size:211 final size:212
Alignment explanation
Indices: 90594495--90594890 Score: 638
Period size: 211 Copynumber: 1.9 Consensus size: 212
90594485 GTCGAAGTAA
* * *
90594495 ACAACGACATTATAATAATAAAAAAACATAAGAAAAAGTCCAAAATACAATAGAAACTTACACCA
1 ACAACAACATTATAAT-ATAAAAAAACATAAGAAAAAGTCCAAAATACAATAAAAACCTACACCA
* *
90594560 CTCCAAACAAAAAAAAACACAACAAAAGTTCAATTGACCAACGACAATAACAAACCAAACCAAAC
65 CTCCAAACAAAAAAAAACACAACAAAAGCTCAATTGACCAACAACAATAACAAACCAAACCAAAC
*
90594625 TAATAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAAGTTTCTTCATTAGTCCAA
130 TAATAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAACTTTCTTCATTAGTCCAA
90594690 ATAAACAACAAAAACAAT
195 ATAAACAACAAAAACAAT
*
90594708 ACAACAACATTGTAAT-TAAAAAAACATAAGCAAAAA-TCCAAAATACAATAAAAACCTACACCA
1 ACAACAACATTATAATATAAAAAAACATAAG-AAAAAGTCCAAAATACAATAAAAACCTACACCA
*
90594771 GTCCAAA-AAAAAAAGAACACAACAAAAGCTCAATT-ATCCAACAACAATAACAAACCAAACCAA
65 CTCCAAACAAAAAAA-AACACAACAAAAGCTCAATTGA-CCAACAACAATAACAAACCAAACCAA
* *
90594834 ACTAATAACAATAACACATCAGTTCAAAAACCATTATAGAATAGTTTAACTTTCTTC
128 ACTAATAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAACTTTCTTC
90594891 TTGTGCTTCA
Statistics
Matches: 170, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
210 8 0.05
211 143 0.84
212 5 0.03
213 14 0.08
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.18
Consensus pattern (212 bp):
ACAACAACATTATAATATAAAAAAACATAAGAAAAAGTCCAAAATACAATAAAAACCTACACCAC
TCCAAACAAAAAAAAACACAACAAAAGCTCAATTGACCAACAACAATAACAAACCAAACCAAACT
AATAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAACTTTCTTCATTAGTCCAAA
TAAACAACAAAAACAAT
Found at i:90599541 original size:20 final size:19
Alignment explanation
Indices: 90599508--90599545 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
90599498 TTTGTTTTAA
90599508 AATTTTAATATTGATAAATT
1 AATTTTAATATTGA-AAATT
90599528 AATTTGTAAT-TTGAAAAT
1 AATTT-TAATATTGAAAAT
90599546 ACTTATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (19 bp):
AATTTTAATATTGAAAATT
Found at i:90604255 original size:9 final size:9
Alignment explanation
Indices: 90604230--90604275 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
90604220 TCGAAAAAAA
90604230 AATTCGAGTT
1 AATTCGA-TT
*
90604240 GATTCGATT
1 AATTCGATT
90604249 AATTCGATT
1 AATTCGATT
*
90604258 AACTCGATT
1 AATTCGATT
*
90604267 AACTCGATT
1 AATTCGATT
90604276 CGAATAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (9 bp):
AATTCGATT
Done.