Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 347 of 433
Found at i:109085321 original size:15 final size:15
Alignment explanation
Indices: 109085281--109085321 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
109085271 GTTAGATTGA
109085281 TTTTTAA-AATTTGT
1 TTTTTAATAATTTGT
109085295 TTTTTAAT-ATTT-T
1 TTTTTAATAATTTGT
109085308 TATTTTAATAATTT
1 T-TTTTAATAATTT
109085322 ATTTGCTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.08
14 18 0.75
15 4 0.17
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (15 bp):
TTTTTAATAATTTGT
Found at i:109085747 original size:16 final size:16
Alignment explanation
Indices: 109085726--109085756 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
109085716 ACATGGAAAA
*
109085726 ATAAAAAATTTTAAAT
1 ATAAAAAATATTAAAT
109085742 ATAAAAAATATTAAA
1 ATAAAAAATATTAAA
109085757 ATTTAATGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAAAAAATATTAAAT
Found at i:109088885 original size:41 final size:41
Alignment explanation
Indices: 109088823--109088912 Score: 171
Period size: 41 Copynumber: 2.2 Consensus size: 41
109088813 GTGAATTAGT
109088823 AACAGAACTAGAAATGAAATGCCATATTCATTGTGACATTTA
1 AACA-AACTAGAAATGAAATGCCATATTCATTGTGACATTTA
109088865 AACAAACTAGAAATGAAATGCCATATTCATTGTGACATTTA
1 AACAAACTAGAAATGAAATGCCATATTCATTGTGACATTTA
109088906 AACAAAC
1 AACAAAC
109088913 ATTGTCCAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 44 0.92
42 4 0.08
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.27
Consensus pattern (41 bp):
AACAAACTAGAAATGAAATGCCATATTCATTGTGACATTTA
Found at i:109091001 original size:47 final size:47
Alignment explanation
Indices: 109090949--109091041 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
109090939 ACTTAGCACC
*
109090949 TTTTCCATTTTCCATTTTCTAT-AAGACATTCGTTAACTTAAGCATTG
1 TTTTCCATTTTCCATTTTCT-TCAAGACATTCGTTAACTGAAGCATTG
*
109090996 TTTTCCATTTTCCATTTTCTTCAAGACATTTGTTAACTGAAGCATT
1 TTTTCCATTTTCCATTTTCTTCAAGACATTCGTTAACTGAAGCATT
109091042 AAAGAGTAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
46 1 0.02
47 42 0.98
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (47 bp):
TTTTCCATTTTCCATTTTCTTCAAGACATTCGTTAACTGAAGCATTG
Found at i:109093213 original size:5 final size:5
Alignment explanation
Indices: 109093198--109093289 Score: 62
Period size: 5 Copynumber: 17.0 Consensus size: 5
109093188 TTATTCCATG
* *
109093198 TATATA TATAA TATAAA TATATT TATAC T-TAA TACTTAA GTATATA TATAA
1 TATA-A TATAA TAT-AA TATA-A TATAA TATAA TA--TAA -TATA-A TATAA
*
109093249 TAATAA -ATTAA TATAA TATAA TATAA TATAA TATAA CATAA
1 T-ATAA TA-TAA TATAA TATAA TATAA TATAA TATAA TATAA
109093290 AAAAAATAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 21
0.74 0.04 0.22
Matches are distributed among these distances:
4 4 0.06
5 38 0.53
6 24 0.33
7 4 0.06
8 2 0.03
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:109100574 original size:20 final size:21
Alignment explanation
Indices: 109100549--109100587 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
109100539 AATTTGTTTA
109100549 TTAAATATTTATG-ATTATTT
1 TTAAATATTTATGAATTATTT
*
109100569 TTAAATTTTTATGAATTAT
1 TTAAATATTTATGAATTAT
109100588 ACATAGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
TTAAATATTTATGAATTATTT
Found at i:109101776 original size:16 final size:16
Alignment explanation
Indices: 109101755--109101785 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
109101745 TTGGTGACAA
109101755 AATTGAAAATTCTTGG
1 AATTGAAAATTCTTGG
109101771 AATTGAAAATTCTTG
1 AATTGAAAATTCTTG
109101786 AGGAGTAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (16 bp):
AATTGAAAATTCTTGG
Found at i:109121664 original size:39 final size:39
Alignment explanation
Indices: 109121619--109121739 Score: 215
Period size: 39 Copynumber: 3.1 Consensus size: 39
109121609 ATGCAAGACA
109121619 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
109121658 CTGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
109121697 CTGGAAATGTGTCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
109121736 CTGG
1 CTGG
109121740 TGCTGGTAAT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.21, C:0.26, G:0.31, T:0.22
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:109126844 original size:39 final size:39
Alignment explanation
Indices: 109126801--109126917 Score: 207
Period size: 39 Copynumber: 3.0 Consensus size: 39
109126791 ATGCAAGACA
109126801 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
109126840 CTGGAAATGTATCCGGGCTAAAGTCTCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
109126879 CTGGAAATGTGTCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
109126918 TGGTGCTGGT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.21, C:0.25, G:0.32, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:109129075 original size:47 final size:46
Alignment explanation
Indices: 109129006--109129097 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 46
109128996 AGATCAAATT
* *
109129006 GATTGAAAAAGATACAAATCCTATACCCCCTGAGTTGTAGTGGGATA
1 GATTGAAAAAGATAAAAATCCTATA-CCCCTGAGTTGCAGTGGGATA
* *
109129053 GATTGAAGATGATAAAAATCCTATACCCCTGAGTTGCAGTGGGAT
1 GATTGAAAAAGATAAAAATCCTATACCCCTGAGTTGCAGTGGGAT
109129098 GGATAAAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 19 0.46
47 22 0.54
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (46 bp):
GATTGAAAAAGATAAAAATCCTATACCCCTGAGTTGCAGTGGGATA
Found at i:109129575 original size:44 final size:44
Alignment explanation
Indices: 109129505--109129745 Score: 263
Period size: 44 Copynumber: 5.4 Consensus size: 44
109129495 TCATGGCGAA
* * *
109129505 TCTTATCTCCCTGAAGTTGTATTGGAGCAGATTAAAGCCACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAG
* *
109129549 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAG
* * * *
109129593 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGAGTGAAGATAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAG
* * * *
109129638 TCTTATCTCCCTGAAGTTGAAGTGGAGTAGACTGAAA-ATAGC-AG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGCTA-CAAG
* * *
109129682 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGCTACCA-
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAG
*
109129726 TCTTTATCTCTCTGAAGTTG
1 TC-TTATCTCCCTGAAGTTG
109129746 AAGTAGAGTA
Statistics
Matches: 174, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
43 2 0.01
44 100 0.57
45 70 0.40
46 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAG
Found at i:109129662 original size:89 final size:89
Alignment explanation
Indices: 109129504--109129749 Score: 268
Period size: 89 Copynumber: 2.8 Consensus size: 89
109129494 ATCATGGCGA
* * * * *
109129504 ATCTTATCTCCCTGAAGTTGTATTGGAGCAGATTAAAGCCACAAGTCTTATCTCCCTGAAGTTGC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAGTAAAGACACAAGTCTTATCTCCCTGAAGTTGA
* **
109129569 AGTGGAGCAGATTGAAGCCA-CA-
66 AGTGGAGCAGACTGAAAACAGCAG
* * *
109129591 AGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGAGTGAAGATAGCAAGTCTTATCTCCCTGAAGTT
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAGTAAAGACA-CAAGTCTTATCTCCCTGAAGTT
* *
109129656 GAAGTGGAGTAGACTGAAAATAGCAG
64 GAAGTGGAGCAGACTGAAAACAGCAG
* * *
109129682 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGA-TCAAAG-CTACCA-TCTTTATCTCTCTGAAGT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAGT-AAAGAC-ACAAGTC-TTATCTCCCTGAAGT
109129744 TGAAGT
63 TGAAGT
109129750 AGAGTAGGAT
Statistics
Matches: 133, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
87 1 0.01
88 35 0.26
89 61 0.46
90 35 0.26
91 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (89 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAGTAAAGACACAAGTCTTATCTCCCTGAAGTTGA
AGTGGAGCAGACTGAAAACAGCAG
Found at i:109129755 original size:44 final size:45
Alignment explanation
Indices: 109129549--109129756 Score: 167
Period size: 45 Copynumber: 4.7 Consensus size: 45
109129539 AAGCCACAAG
* * * * ***
109129549 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CA-A
1 TCTTATCTCCCTGAAGTTGAAGTGGAGTAGACTCAAAATAGCACA
* * * * * *
109129592 GTCTTATCTCTCTGAAGTTGCAGTGGAGCAGAGTGAAGATAGCA-A
1 -TCTTATCTCCCTGAAGTTGAAGTGGAGTAGACTCAAAATAGCACA
* *
109129637 GTCTTATCTCCCTGAAGTTGAAGTGGAGTAGACTGAAAATAGCAGA
1 -TCTTATCTCCCTGAAGTTGAAGTGGAGTAGACTCAAAATAGCACA
* *
109129683 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGA-TCAAAGCTA-C-CA
1 TCTTATCTCCCTGAAGTTGAAGTGGAGTAGACTCAAA-ATAGCACA
* *
109129726 TCTTTATCTCTCTGAAGTTGAAGTAGAGTAG
1 TC-TTATCTCCCTGAAGTTGAAGTGGAGTAG
109129757 GATAAAACTA
Statistics
Matches: 144, Mismatches: 16, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
43 3 0.02
44 66 0.46
45 74 0.51
46 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGAAGTGGAGTAGACTCAAAATAGCACA
Found at i:109129780 original size:90 final size:90
Alignment explanation
Indices: 109129508--109129802 Score: 244
Period size: 90 Copynumber: 3.3 Consensus size: 90
109129498 TGGCGAATCT
* * * ** *
109129508 TATCTCCCTGAAGTTGTATTGGAGCAGATTAAAGCCA-CAAGTCTTATCTCCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAGTAAAGATAGCAAGTCTTATCTCCCTGAAGTTGAAGT
* * * *** ** *
109129572 GGAGCAGATTG-AAGCCACAAGTCT
66 AGAGTAGACTGAAAATAACAAACCA
* *
109129596 TATCTCTCTGAAGTTGCAGTGGAGCAGAGTGAAGATAGCAAGTCTTATCTCCCTGAAGTTGAAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAGTAAAGATAGCAAGTCTTATCTCCCTGAAGTTGAAGT
* * * * *
109129661 GGAGTAGACTGAAAATAGCAGATCT
66 AGAGTAGACTGAAAATAACAAACCA
* * * *
109129686 TATCTCCCTGAAGTTGCAGTGGAGTAGA-TCAAAGCTA-CCA-TCTTTATCTCTCTGAAGTTGAA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAGT-AAAGATAGCAAGTC-TTATCTCCCTGAAGTTGAA
109129748 GTAGAGTAGGA-T-AAAACTACACAAACCA
64 GTAGAGTA-GACTGAAAA-TA-ACAAACCA
* *
109129776 TATCTCCCTAAAGTTGCAGTGAAGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAG
109129803 GTTGAAATTA
Statistics
Matches: 170, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
88 36 0.21
89 66 0.39
90 68 0.40
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (90 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGAGTAAAGATAGCAAGTCTTATCTCCCTGAAGTTGAAGT
AGAGTAGACTGAAAATAACAAACCA
Found at i:109131670 original size:28 final size:26
Alignment explanation
Indices: 109131638--109131700 Score: 90
Period size: 28 Copynumber: 2.3 Consensus size: 26
109131628 ACCATTTTGT
109131638 ATATTATTTAGTTTAAACCTCTTTTTAC
1 ATATTATTTAGTTTAAA-CT-TTTTTAC
* *
109131666 ATATTATTTATTTTAAACTTTTTTAT
1 ATATTATTTAGTTTAAACTTTTTTAC
109131692 ATATTATTT
1 ATATTATTT
109131701 TAAGTTGTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 15 0.45
27 2 0.06
28 16 0.48
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (26 bp):
ATATTATTTAGTTTAAACTTTTTTAC
Found at i:109131695 original size:26 final size:26
Alignment explanation
Indices: 109131632--109131821 Score: 94
Period size: 26 Copynumber: 7.5 Consensus size: 26
109131622 TTTTACACCA
* *
109131632 TTTTGTATATTATTTAGTTTAAACCTCT
1 TTTTATATATTATTTATTTTAAA-CT-T
*
109131660 TTTTACATATTATTTATTTTAAAC-T
1 TTTTATATATTATTTATTTTAAACTT
*
109131685 TTTT-TATA-TA-TTATTTT-AAGTT
1 TTTTATATATTATTTATTTTAAACTT
* * * * *
109131707 GTCTTATGTATTATTTGTTTAAAACTG
1 -TTTTATATATTATTTATTTTAAACTT
* * * * *
109131734 CTTTGTCTATCA-TTATTTTTAA-TT
1 TTTTATATATTATTTATTTTAAACTT
* *
109131758 GTTTTACATATTATTTATCTTAAA-TT
1 -TTTTATATATTATTTATTTTAAACTT
* * *
109131784 ATTTTATATA--ATTTACTTCAAACTG
1 -TTTTATATATTATTTATTTTAAACTT
109131809 TTTTATATATTAT
1 TTTTATATATTAT
109131822 ATTGTTTCGC
Statistics
Matches: 118, Mismatches: 33, Indels: 24
0.67 0.19 0.14
Matches are distributed among these distances:
21 2 0.02
22 8 0.07
23 5 0.04
24 25 0.21
25 22 0.19
26 32 0.27
27 4 0.03
28 20 0.17
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.58
Consensus pattern (26 bp):
TTTTATATATTATTTATTTTAAACTT
Found at i:109131770 original size:51 final size:48
Alignment explanation
Indices: 109131660--109131781 Score: 129
Period size: 48 Copynumber: 2.5 Consensus size: 48
109131650 TTAAACCTCT
* *
109131660 TTTTACATATTATTTATTTTAAACTTTTTTATATATTATTTTAAGTTG
1 TTTTACATATTATTTATTTAAAACTTTTGTATATATTATTTTAAGTTG
* ** * *
109131708 TCTTATGTATTATTTGTTTAAAACTGCTTTGTCTATCATTATTTTTAA-TTG
1 TTTTACATATTATTTATTTAAAACT--TTTGTATAT-ATTA-TTTTAAGTTG
109131759 TTTTACATATTATTTATCTTAAA
1 TTTTACATATTATTTAT-TTAAA
109131782 TTATTTTATA
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
48 20 0.34
50 7 0.12
51 20 0.34
52 11 0.19
ACGTcount: A:0.28, C:0.07, G:0.06, T:0.59
Consensus pattern (48 bp):
TTTTACATATTATTTATTTAAAACTTTTGTATATATTATTTTAAGTTG
Found at i:109138400 original size:27 final size:27
Alignment explanation
Indices: 109138358--109138413 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
109138348 ATTTAGATGG
109138358 GTGGAGGGTGTCAGATAAGCAGCACCA
1 GTGGAGGGTGTCAGATAAGCAGCACCA
* *
109138385 GTGGAGGGTGTTAGATAAGCGGCACCA
1 GTGGAGGGTGTCAGATAAGCAGCACCA
109138412 GT
1 GT
109138414 TGCGTCTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.16, G:0.39, T:0.18
Consensus pattern (27 bp):
GTGGAGGGTGTCAGATAAGCAGCACCA
Found at i:109138428 original size:27 final size:27
Alignment explanation
Indices: 109138398--109138463 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
109138388 GAGGGTGTTA
*
109138398 GATAAGCGGCACCAGTTGCGTCTATCT
1 GATAAGCGGCACCAGTTGCGCCTATCT
* * *
109138425 GATAGGTGGCACCAGTTGTGCCTATCT
1 GATAAGCGGCACCAGTTGCGCCTATCT
*
109138452 GATAAGCAGCAC
1 GATAAGCGGCAC
109138464 ACCCAATATA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (27 bp):
GATAAGCGGCACCAGTTGCGCCTATCT
Found at i:109138639 original size:17 final size:17
Alignment explanation
Indices: 109138619--109138651 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
109138609 TATGATTTAA
*
109138619 TTTTTTAAGATTTTATG
1 TTTTTTAAAATTTTATG
109138636 TTTTTTAAAATTTTAT
1 TTTTTTAAAATTTTAT
109138652 TTTATGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTTTTAAAATTTTATG
Found at i:109139236 original size:22 final size:21
Alignment explanation
Indices: 109139195--109139238 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
109139185 CATCTTTTAC
109139195 ATATATAAAAAATAAAAAATA
1 ATATATAAAAAATAAAAAATA
109139216 ATAT-TAAAATAATCAAAAAATA
1 ATATATAAAA-AAT-AAAAAATA
109139238 A
1 A
109139239 CATGCCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.24
21 7 0.33
22 9 0.43
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (21 bp):
ATATATAAAAAATAAAAAATA
Found at i:109140145 original size:2 final size:2
Alignment explanation
Indices: 109140138--109140171 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
109140128 TCAATTCAAA
109140138 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
109140172 TGGTTTACTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109140948 original size:23 final size:23
Alignment explanation
Indices: 109140922--109140965 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
109140912 TTTTAACCGT
109140922 AAAAATAA-ATAATTTTTTAATAA
1 AAAAATAATAT-ATTTTTTAATAA
*
109140945 AAAACTAATATATTTTTTAAT
1 AAAAATAATATATTTTTTAAT
109140966 TTAACATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
AAAAATAATATATTTTTTAATAA
Found at i:109142343 original size:21 final size:21
Alignment explanation
Indices: 109142318--109142373 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
109142308 TTCAGAATCC
**
109142318 CACACAAGCGTGTGTTTTGGA
1 CACACAAGCGTGTGTGGTGGA
* * *
109142339 CACACGACCGTGTCTGGTGGA
1 CACACAAGCGTGTGTGGTGGA
*
109142360 CACACAAGTGTGTG
1 CACACAAGCGTGTG
109142374 AGGCACTTAC
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.23
Consensus pattern (21 bp):
CACACAAGCGTGTGTGGTGGA
Found at i:109144478 original size:2 final size:2
Alignment explanation
Indices: 109144471--109144503 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
109144461 TTTGTAGGTC
109144471 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
109144504 TAGTCCTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:109145816 original size:11 final size:13
Alignment explanation
Indices: 109145790--109145825 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
109145780 TTTTGTGAAG
109145790 TATTGATATTTAA
1 TATTGATATTTAA
109145803 TATTGAT-TTT-A
1 TATTGATATTTAA
109145814 TA-TGATATTTAA
1 TATTGATATTTAA
109145826 AAAATATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 4 0.19
11 6 0.29
12 4 0.19
13 7 0.33
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
TATTGATATTTAA
Found at i:109145823 original size:23 final size:23
Alignment explanation
Indices: 109145790--109145856 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 23
109145780 TTTTGTGAAG
109145790 TATTGATATTT-AATATTGATTT
1 TATTGATATTTAAATATTGATTT
109145812 TATATGATATTTAAAAAATATTGATTT
1 TAT-TGATATTT---AAATATTGATTT
*
109145839 TATT-ATATTTCAATATTG
1 TATTGATATTTAAATATTG
109145857 GCATAATTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
22 10 0.26
23 8 0.21
25 6 0.15
26 1 0.03
27 14 0.36
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.54
Consensus pattern (23 bp):
TATTGATATTTAAATATTGATTT
Found at i:109148027 original size:2 final size:2
Alignment explanation
Indices: 109148020--109148052 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
109148010 GAGACTAGTC
109148020 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
109148053 CATGTCATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:109149267 original size:50 final size:49
Alignment explanation
Indices: 109149136--109149327 Score: 222
Period size: 50 Copynumber: 3.9 Consensus size: 49
109149126 TATGTAGCCA
* * * * *
109149136 AACTATCTGGTACCCATAGTAGCCTGCACTTAGTGCTACACATGCGACC
1 AACTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
* *
109149185 AATTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 AACTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
*
109149234 TAACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAC
1 -AACTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-C-C
** * * * * *
109149286 AGTTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTGCACA
1 AACTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
109149328 TGCGACCTAG
Statistics
Matches: 122, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 42 0.34
50 44 0.36
51 35 0.29
52 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (49 bp):
AACTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
Found at i:109149354 original size:101 final size:99
Alignment explanation
Indices: 109149136--109149336 Score: 258
Period size: 101 Copynumber: 2.0 Consensus size: 99
109149126 TATGTAGCCA
* * * * * *
109149136 AACTATCTGGTACCCATAGTAGCCTGCACTTAGTGCTACACATGCGACCAATTATCCGGTACACG
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACA
*
109149201 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
66 TAGTAGCCTGCACTTAGTACTACACACGCGACCT
* * * * *
109149235 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACG
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAATTATCCGGTACA
* *
109149300 CATAGTAGCCTGCACTTAGTACTGCACATGCGACCT
64 CATAGTAGCCTGCACTTAGTACTACACACGCGACCT
109149336 A
1 A
109149337 GCTACATATA
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 41 0.48
100 1 0.01
101 44 0.51
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (99 bp):
AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACA
TAGTAGCCTGCACTTAGTACTACACACGCGACCT
Found at i:109150156 original size:30 final size:30
Alignment explanation
Indices: 109150122--109150182 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
109150112 TCCTTAACTC
109150122 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
109150152 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
109150182 A
1 A
109150183 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:109151444 original size:34 final size:34
Alignment explanation
Indices: 109151401--109151474 Score: 130
Period size: 34 Copynumber: 2.2 Consensus size: 34
109151391 ATGTAAGAAT
109151401 ATTACACACATGGAAACAAGAAGGAACTCACCAG
1 ATTACACACATGGAAACAAGAAGGAACTCACCAG
*
109151435 ATTACACACATGGAAGCAAGAAGGAACTCACCAG
1 ATTACACACATGGAAACAAGAAGGAACTCACCAG
*
109151469 AATACA
1 ATTACA
109151475 ACAAAGTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.47, C:0.23, G:0.18, T:0.12
Consensus pattern (34 bp):
ATTACACACATGGAAACAAGAAGGAACTCACCAG
Found at i:109152949 original size:56 final size:55
Alignment explanation
Indices: 109152887--109153042 Score: 181
Period size: 56 Copynumber: 2.8 Consensus size: 55
109152877 ACATAGCACA
* * *
109152887 CCTCTCAACAGGGCTACCTAAAAGCACCCAGACCTAGCATGTATCACATAA-T-CACG
1 CCTCTCAAC-GGGCTA-C-ATAAGCTCCCGGACCTAGCATGTATCACATAATTACACG
* * * * *
109152943 CCTCTCAACGGGGCTACATAAGCTCTCGGATCTAGCGTGTACCACATAATTACATG
1 CCTCTCAAC-GGGCTACATAAGCTCCCGGACCTAGCATGTATCACATAATTACACG
109152999 CCTCTCAACGAGGCTACATAAGCTCCCGGACCTAGCATGTATCA
1 CCTCTCAACG-GGCTACATAAGCTCCCGGACCTAGCATGTATCA
109153043 TGCCATCAAA
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
54 25 0.30
55 3 0.04
56 56 0.67
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.21
Consensus pattern (55 bp):
CCTCTCAACGGGCTACATAAGCTCCCGGACCTAGCATGTATCACATAATTACACG
Found at i:109156926 original size:24 final size:25
Alignment explanation
Indices: 109156887--109156937 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
109156877 ATTTTTGGAA
*
109156887 AAATTAATTCAGATCAAGTAAAATT
1 AAATTAATTCAAATCAAGTAAAATT
* *
109156912 AAATT-ATTCAAATCAATTATAATT
1 AAATTAATTCAAATCAAGTAAAATT
109156936 AA
1 AA
109156938 TATGATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (25 bp):
AAATTAATTCAAATCAAGTAAAATT
Found at i:109171374 original size:46 final size:46
Alignment explanation
Indices: 109171307--109171395 Score: 151
Period size: 46 Copynumber: 1.9 Consensus size: 46
109171297 GTCTACTATC
109171307 TTTAAACTCAATACAACAAGTGATTTAAGTCATATCACATCCTGTT
1 TTTAAACTCAATACAACAAGTGATTTAAGTCATATCACATCCTGTT
* * *
109171353 TTTAAACTCAATATAACAAGTGATTTAAGTCCTATCAGATCCT
1 TTTAAACTCAATACAACAAGTGATTTAAGTCATATCACATCCT
109171396 AATATAGCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (46 bp):
TTTAAACTCAATACAACAAGTGATTTAAGTCATATCACATCCTGTT
Found at i:109171379 original size:23 final size:23
Alignment explanation
Indices: 109171307--109171380 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
109171297 GTCTACTATC
*
109171307 TTTAAACTCAATACAACAAGTGA
1 TTTAAACTCAATATAACAAGTGA
* * ** *
109171330 TTT-AAGTC-ATATCACATCCTGTT
1 TTTAAACTCAATATAACA-AGTG-A
109171353 TTTAAACTCAATATAACAAGTGA
1 TTTAAACTCAATATAACAAGTGA
109171376 TTTAA
1 TTTAA
109171381 GTCCTATCAG
Statistics
Matches: 36, Mismatches: 11, Indels: 8
0.65 0.20 0.15
Matches are distributed among these distances:
21 6 0.17
22 6 0.17
23 11 0.31
24 6 0.17
25 7 0.19
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (23 bp):
TTTAAACTCAATATAACAAGTGA
Found at i:109180824 original size:20 final size:20
Alignment explanation
Indices: 109180796--109180888 Score: 73
Period size: 20 Copynumber: 4.7 Consensus size: 20
109180786 ATTCATTTTT
* *
109180796 ATTCGTATAAACTGTAATTC
1 ATTCATATAAACAGTAATTC
* *
109180816 ATTCATATAACCAGTAGTTC
1 ATTCATATAAACAGTAATTC
** * *
109180836 ACCCGTATAAACAGTAGTTC
1 ATTCATATAAACAGTAATTC
109180856 A-TCACTA-ATAACAGTAATTC
1 ATTCA-TATA-AACAGTAATTC
*
109180876 ATCCATATAAACA
1 ATTCATATAAACA
109180889 CATATCTTAT
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
19 2 0.04
20 52 0.91
21 3 0.05
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (20 bp):
ATTCATATAAACAGTAATTC
Found at i:109180857 original size:40 final size:40
Alignment explanation
Indices: 109180799--109180888 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 40
109180789 CATTTTTATT
* *
109180799 CGTATAAACTGTAATTCATTCA-T-ATAACCAGTAGTTCACC
1 CGTATAAACAGTAATTCA-TCACTAATAA-CAGTAATTCACC
* *
109180839 CGTATAAACAGTAGTTCATCACTAATAACAGTAATTCATC
1 CGTATAAACAGTAATTCATCACTAATAACAGTAATTCACC
*
109180879 CATATAAACA
1 CGTATAAACA
109180889 CATATCTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
39 3 0.07
40 36 0.84
41 4 0.09
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (40 bp):
CGTATAAACAGTAATTCATCACTAATAACAGTAATTCACC
Found at i:109181081 original size:23 final size:23
Alignment explanation
Indices: 109181032--109181443 Score: 214
Period size: 23 Copynumber: 17.5 Consensus size: 23
109181022 GAGCCATGAT
*
109181032 CAGTAAGCTCCTCTTGAGCTGATAAA
1 CAGTAAGCT-CTATTGAGCTG--AAA
*
109181058 CAGTAAGCTCTATTGAGTTGAAA
1 CAGTAAGCTCTATTGAGCTGAAA
* * *
109181081 CGGTAAGCTCTATCGAACTG-AA
1 CAGTAAGCTCTATTGAGCTGAAA
*
109181103 CAATAAGCTCT-TATGAGCT-AAA
1 CAGTAAGCTCTAT-TGAGCTGAAA
* * * * *
109181125 TCGGTAATCTCCAATGAGCTAAAAA
1 -CAGTAAGCTCTATTGAGCT-GAAA
* **
109181150 CAGTAAGCTCTTTTGAGCTGAGT
1 CAGTAAGCTCTATTGAGCTGAAA
* * * *
109181173 CGGTAAGCTCCAATAAGCTGAAAA
1 CAGTAAGCTCTATTGAGCTG-AAA
*
109181197 CAGTAAGCTCT-TTCGAGCCATG-AT
1 CAGTAAGCTCTATT-GAG-C-TGAAA
*
109181221 CAGTAAGCTCCTCTTGAGCTGATAAA
1 CAGTAAGCT-CTATTGAGCTG--AAA
*
109181247 CAGTAAGCTCTATTGAGTTGAAA
1 CAGTAAGCTCTATTGAGCTGAAA
* * *
109181270 CGGTAAGCTCTATCGAACTG-AA
1 CAGTAAGCTCTATTGAGCTGAAA
*
109181292 CAATAAGCTCT-TATGAGCT-AAA
1 CAGTAAGCTCTAT-TGAGCTGAAA
* * * * *
109181314 TCGGTAATCTCCAATGAGCTAAAAA
1 -CAGTAAGCTCTATTGAGCT-GAAA
**
109181339 CAGTAAGCTCT-TTCGAGCTGAGT
1 CAGTAAGCTCTATT-GAGCTGAAA
* * * *
109181362 CGGTAAGCTCCAATAAGCTGAAAA
1 CAGTAAGCTCTATTGAGCTG-AAA
*
109181386 CAGTAAGCTCT-TTCGAGCTGAAT
1 CAGTAAGCTCTATT-GAGCTGAAA
* *
109181409 CAGTAAGCTCCAATGAGCTGAAAA
1 CAGTAAGCTCTATTGAGCTG-AAA
*
109181433 TAGTAAGCTCT
1 CAGTAAGCTCT
109181444 TACGAGCTGA
Statistics
Matches: 285, Mismatches: 74, Indels: 56
0.69 0.18 0.13
Matches are distributed among these distances:
21 2 0.01
22 34 0.12
23 118 0.41
24 78 0.27
25 30 0.11
26 23 0.08
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (23 bp):
CAGTAAGCTCTATTGAGCTGAAA
Found at i:109181450 original size:24 final size:24
Alignment explanation
Indices: 109181377--109181453 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
109181367 AGCTCCAATA
* *
109181377 AGCTGAAAACAGTAAGCTCTTTCG
1 AGCTGAAAATAGTAAGCTCTTACG
** *
109181401 AGCTG--AATCAGTAAGCTCCAATG
1 AGCTGAAAAT-AGTAAGCTCTTACG
109181424 AGCTGAAAATAGTAAGCTCTTACG
1 AGCTGAAAATAGTAAGCTCTTACG
109181448 AGCTGA
1 AGCTGA
109181454 TATACCGGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
22 2 0.05
23 15 0.36
24 22 0.52
25 3 0.07
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (24 bp):
AGCTGAAAATAGTAAGCTCTTACG
Found at i:109181452 original size:47 final size:47
Alignment explanation
Indices: 109181046--109181468 Score: 369
Period size: 47 Copynumber: 8.9 Consensus size: 47
109181036 AAGCTCCTCT
* * * *
109181046 TGAGCTGATAAACAGTAAGCTC-TATTGAGTTGAAACGGTAAGCT-CTA
1 TGAGCTGA-AAACAGTAAGCTCTTA-CGAGCTGAATCGGTAAGCTCCAA
* * * * *
109181093 TCGAACTG--AACAATAAGCTCTTATGAGCTAAATCGGTAATCTCCAA
1 T-GAGCTGAAAACAGTAAGCTCTTACGAGCTGAATCGGTAAGCTCCAA
* ** *
109181139 TGAGCTAAAAACAGTAAGCTCTTTTGAGCTGAGTCGGTAAGCTCCAA
1 TGAGCTGAAAACAGTAAGCTCTTACGAGCTGAATCGGTAAGCTCCAA
* * * **
109181186 TAAGCTGAAAACAGTAAGCTCTTTCGAGCCATG-ATCAGTAAGCTCCTCT
1 TGAGCTGAAAACAGTAAGCTCTTACGAG-C-TGAATCGGTAAGCTCC-AA
* * * *
109181235 TGAGCTGATAAACAGTAAGCTC-TATTGAGTTGAAACGGTAAGCT-CTA
1 TGAGCTGA-AAACAGTAAGCTCTTA-CGAGCTGAATCGGTAAGCTCCAA
* * * * *
109181282 TCGAACTG--AACAATAAGCTCTTATGAGCTAAATCGGTAATCTCCAA
1 T-GAGCTGAAAACAGTAAGCTCTTACGAGCTGAATCGGTAAGCTCCAA
* * *
109181328 TGAGCTAAAAACAGTAAGCTCTTTCGAGCTGAGTCGGTAAGCTCCAA
1 TGAGCTGAAAACAGTAAGCTCTTACGAGCTGAATCGGTAAGCTCCAA
* * *
109181375 TAAGCTGAAAACAGTAAGCTCTTTCGAGCTGAATCAGTAAGCTCCAA
1 TGAGCTGAAAACAGTAAGCTCTTACGAGCTGAATCGGTAAGCTCCAA
*
109181422 TGAGCTGAAAATAGTAAGCTCTTACGAGCTGATATACCGGTAAGCTC
1 TGAGCTGAAAACAGTAAGCTCTTACGAGCTGA-AT--CGGTAAGCTC
109181469 ATACGAGCTG
Statistics
Matches: 305, Mismatches: 52, Indels: 35
0.78 0.13 0.09
Matches are distributed among these distances:
45 60 0.20
46 10 0.03
47 164 0.54
48 27 0.09
49 19 0.06
50 25 0.08
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (47 bp):
TGAGCTGAAAACAGTAAGCTCTTACGAGCTGAATCGGTAAGCTCCAA
Found at i:109181468 original size:189 final size:189
Alignment explanation
Indices: 109181014--109181443 Score: 787
Period size: 189 Copynumber: 2.3 Consensus size: 189
109181004 TATCATTTAT
109181014 GCTCTTTCGAGCCATGATCAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCTATTGAGTTGA
1 GCTCTTTCGAGCCATGATCAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCTATTGAGTTGA
109181079 AACGGTAAGCTCTATCGAACTGAACAATAAGCTCTTATGAGCTAAATCGGTAATCTCCAATGAGC
66 AACGGTAAGCTCTATCGAACTGAACAATAAGCTCTTATGAGCTAAATCGGTAATCTCCAATGAGC
*
109181144 TAAAAACAGTAAGCTCTTTTGAGCTGAGTCGGTAAGCTCCAATAAGCTGAAAACAGTAA
131 TAAAAACAGTAAGCTCTTTCGAGCTGAGTCGGTAAGCTCCAATAAGCTGAAAACAGTAA
109181203 GCTCTTTCGAGCCATGATCAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCTATTGAGTTGA
1 GCTCTTTCGAGCCATGATCAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCTATTGAGTTGA
109181268 AACGGTAAGCTCTATCGAACTGAACAATAAGCTCTTATGAGCTAAATCGGTAATCTCCAATGAGC
66 AACGGTAAGCTCTATCGAACTGAACAATAAGCTCTTATGAGCTAAATCGGTAATCTCCAATGAGC
109181333 TAAAAACAGTAAGCTCTTTCGAGCTGAGTCGGTAAGCTCCAATAAGCTGAAAACAGTAA
131 TAAAAACAGTAAGCTCTTTCGAGCTGAGTCGGTAAGCTCCAATAAGCTGAAAACAGTAA
** *
109181392 GCTCTTTCGAG-C-TGAATCAGTAAGCTCC-AATGAGCTGA-AAATAGTAAGCTCT
1 GCTCTTTCGAGCCATG-ATCAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCT
109181444 TACGAGCTGA
Statistics
Matches: 236, Mismatches: 4, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
186 13 0.06
187 10 0.04
188 14 0.06
189 199 0.84
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (189 bp):
GCTCTTTCGAGCCATGATCAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCTATTGAGTTGA
AACGGTAAGCTCTATCGAACTGAACAATAAGCTCTTATGAGCTAAATCGGTAATCTCCAATGAGC
TAAAAACAGTAAGCTCTTTCGAGCTGAGTCGGTAAGCTCCAATAAGCTGAAAACAGTAA
Found at i:109184183 original size:40 final size:40
Alignment explanation
Indices: 109184131--109184318 Score: 220
Period size: 40 Copynumber: 4.7 Consensus size: 40
109184121 GCCACTAGCT
** *
109184131 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCA
109184171 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCA
* *
109184210 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCA
* * * *** * *
109184250 CAAACGCCTTCGGGAGTTAGCCCGG-AATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAATAACTCGCA
109184290 CAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 CAAATGCCT-TCGGGACTTAGCCCGGTTAT
109184319 CATCCGAACA
Statistics
Matches: 128, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 39 0.30
40 88 0.69
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCA
Found at i:109184229 original size:79 final size:80
Alignment explanation
Indices: 109184124--109184318 Score: 241
Period size: 79 Copynumber: 2.5 Consensus size: 80
109184114 GGATATAGCC
* ** * *
109184124 ACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCACAAATGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCACAAACGCCTTCGGGACTT
* *
109184189 AGCCCGGTA-TAATA
66 AGCCCGGAATTAACA
* * * *
109184203 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGAGTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCACAAACGCCTTCGGGACTT
* *
109184268 AGCCCGGAATTAGCC
66 AGCCCGGAATTAACA
*
109184283 ACTAGCTCAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 ACTAGCACAAATGCCT-TCGGGACTTAGCCCGGTTAT
109184319 CATCCGAACA
Statistics
Matches: 98, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
79 66 0.67
80 32 0.33
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCACAAACGCCTTCGGGACTT
AGCCCGGAATTAACA
Found at i:109189196 original size:20 final size:20
Alignment explanation
Indices: 109189171--109189208 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
109189161 AAAGCATAAA
*
109189171 ATACCAAGTATCAACAAAAC
1 ATACCAAATATCAACAAAAC
109189191 ATACCAAATATCAACAAA
1 ATACCAAATATCAACAAA
109189209 GTGCATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.03, T:0.16
Consensus pattern (20 bp):
ATACCAAATATCAACAAAAC
Found at i:109194440 original size:20 final size:20
Alignment explanation
Indices: 109194417--109194562 Score: 93
Period size: 20 Copynumber: 7.5 Consensus size: 20
109194407 TTGTACTTCG
*
109194417 GTGCCCTTGATCGCACTTAT
1 GTGCCCCTGATCGCACTTAT
* * **
109194437 GTGCCCCT-ATTGTACTTCG
1 GTGCCCCTGATCGCACTTAT
* *
109194456 GTACCCCTGATCGCACTTAC
1 GTGCCCCTGATCGCACTTAT
* * * **
109194476 GTGCCCTTG-TTGTACTTCG
1 GTGCCCCTGATCGCACTTAT
**
109194495 GTATCCCTGATCGCACTTAT
1 GTGCCCCTGATCGCACTTAT
*
109194515 GTGCCCCTG-TCGTACTT-T
1 GTGCCCCTGATCGCACTTAT
* *
109194533 GGTACCCCTGATTGCACTTAT
1 -GTGCCCCTGATCGCACTTAT
*
109194554 GTGACCCTG
1 GTGCCCCTG
109194563 TTGTATTTCG
Statistics
Matches: 90, Mismatches: 31, Indels: 10
0.69 0.24 0.08
Matches are distributed among these distances:
18 1 0.01
19 41 0.46
20 47 0.52
21 1 0.01
ACGTcount: A:0.14, C:0.32, G:0.21, T:0.34
Consensus pattern (20 bp):
GTGCCCCTGATCGCACTTAT
Found at i:109194467 original size:39 final size:39
Alignment explanation
Indices: 109194405--109194574 Score: 241
Period size: 39 Copynumber: 4.4 Consensus size: 39
109194395 AGTAGAAAAT
* *
109194405 TGTTGTACTTCGGTGCCCTTGATCGCACTTATGTGCCCC
1 TGTTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCC
* * *
109194444 TATTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCT
1 TGTTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCC
*
109194483 TGTTGTACTTCGGTATCCCTGATCGCACTTATGTGCCCC
1 TGTTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCC
* * * *
109194522 TGTCGTACTTTGGTACCCCTGATTGCACTTATGTGACCC
1 TGTTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCC
*
109194561 TGTTGTATTTCGGT
1 TGTTGTACTTCGGT
109194575 TGTCCTGATA
Statistics
Matches: 114, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 114 1.00
ACGTcount: A:0.13, C:0.29, G:0.21, T:0.37
Consensus pattern (39 bp):
TGTTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCC
Found at i:109194492 original size:19 final size:19
Alignment explanation
Indices: 109194404--109194496 Score: 62
Period size: 20 Copynumber: 4.8 Consensus size: 19
109194394 TAGTAGAAAA
109194404 TTGTTGTACTTCGGTGCCC
1 TTGTTGTACTTCGGTGCCC
* * **
109194423 TTGATCGCACTTATGTGCCC
1 TTG-TTGTACTTCGGTGCCC
* * *
109194443 CTATTGTACTTCGGTACCC
1 TTGTTGTACTTCGGTGCCC
* * *
109194462 CTGATCGCACTTAC-GTGCCC
1 TTG-TTGTACTT-CGGTGCCC
109194482 TTGTTGTACTTCGGT
1 TTGTTGTACTTCGGT
109194497 ATCCCTGATC
Statistics
Matches: 52, Mismatches: 18, Indels: 8
0.67 0.23 0.10
Matches are distributed among these distances:
18 1 0.02
19 24 0.46
20 26 0.50
21 1 0.02
ACGTcount: A:0.12, C:0.29, G:0.22, T:0.38
Consensus pattern (19 bp):
TTGTTGTACTTCGGTGCCC
Found at i:109194540 original size:19 final size:20
Alignment explanation
Indices: 109194409--109194544 Score: 82
Period size: 19 Copynumber: 7.0 Consensus size: 20
109194399 GAAAATTGTT
* *
109194409 GTACTTCGGTGCCCTTGATC
1 GTACTTCGGTACCCCTGATC
* ** * *
109194429 GCACTTATGTGCCCCT-ATT
1 GTACTTCGGTACCCCTGATC
109194448 GTACTTCGGTACCCCTGATC
1 GTACTTCGGTACCCCTGATC
* * * *
109194468 GCACTTAC-GTGCCCTTG-TT
1 GTACTT-CGGTACCCCTGATC
*
109194487 GTACTTCGGTATCCCTGATC
1 GTACTTCGGTACCCCTGATC
* ** *
109194507 GCACTTATGTGCCCCTG-TC
1 GTACTTCGGTACCCCTGATC
*
109194526 GTACTTTGGTACCCCTGAT
1 GTACTTCGGTACCCCTGAT
109194545 TGCACTTATG
Statistics
Matches: 83, Mismatches: 28, Indels: 10
0.69 0.23 0.08
Matches are distributed among these distances:
18 1 0.01
19 41 0.49
20 40 0.48
21 1 0.01
ACGTcount: A:0.13, C:0.32, G:0.21, T:0.35
Consensus pattern (20 bp):
GTACTTCGGTACCCCTGATC
Found at i:109196395 original size:2 final size:2
Alignment explanation
Indices: 109196388--109196425 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
109196378 CAACTGAATG
*
109196388 AT AT AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
109196426 GGCCAAAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109198927 original size:46 final size:46
Alignment explanation
Indices: 109198860--109199033 Score: 294
Period size: 46 Copynumber: 3.8 Consensus size: 46
109198850 TGTAACCTGC
109198860 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
109198906 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* ***
109198952 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
109198998 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
109199034 ATGCTCAACC
Statistics
Matches: 122, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 122 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:109204508 original size:46 final size:46
Alignment explanation
Indices: 109204361--109204491 Score: 210
Period size: 46 Copynumber: 2.8 Consensus size: 46
109204351 TGTAACCCGC
* *
109204361 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGATGTTCGCAT
* *
109204407 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
109204453 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
109204492 CTCAACCATC
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
45 2 0.03
46 76 0.97
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:109230083 original size:7 final size:7
Alignment explanation
Indices: 109230073--109230134 Score: 106
Period size: 7 Copynumber: 8.7 Consensus size: 7
109230063 AACAATTAAC
109230073 ATATAAT
1 ATATAAT
109230080 ATATAAT
1 ATATAAT
109230087 ATATAAT
1 ATATAAT
109230094 ATATAAT
1 ATATAAT
109230101 ATATAAT
1 ATATAAT
109230108 ATATAAT
1 ATATAAT
109230115 ATATAAT
1 ATATAAT
*
109230122 AAATAAT
1 ATATAAT
109230129 AATATA
1 -ATATA
109230135 TTATTTATTA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
7 48 0.92
8 4 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
ATATAAT
Found at i:109230085 original size:21 final size:21
Alignment explanation
Indices: 109230061--109230134 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
109230051 TACAAGGTTA
109230061 ATAACAAT-TAACATATAATAT
1 ATAA-AATATAACATATAATAT
* *
109230082 ATAATATATAATATATAATAT
1 ATAAAATATAACATATAATAT
* * *
109230103 ATAATATATAATATATAATAA
1 ATAAAATATAACATATAATAT
109230124 ATAATAATATA
1 ATAA-AATATA
109230135 TTATTTATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
20 2 0.04
21 40 0.85
22 5 0.11
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAAAATATAACATATAATAT
Found at i:109230238 original size:28 final size:28
Alignment explanation
Indices: 109230198--109230251 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
109230188 ACTGTTCTAA
*
109230198 AATATTTACAAAAAAGACATCTAATTTC
1 AATATTTACAAAAAAGACAACTAATTTC
*
109230226 AATATTTACAAAAAAGGCAACTAATT
1 AATATTTACAAAAAAGACAACTAATT
109230252 ATTGAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.30
Consensus pattern (28 bp):
AATATTTACAAAAAAGACAACTAATTTC
Found at i:109235921 original size:40 final size:40
Alignment explanation
Indices: 109235876--109236055 Score: 256
Period size: 40 Copynumber: 4.5 Consensus size: 40
109235866 TTCGAATAAT
109235876 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
109235916 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* * * *
109235956 ATCCGAGTTAATTCCCGAAGGCAATTGTGTGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
109235996 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTATA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTA-A
*
109236037 A-CCGGGCT-ATGTCCCGAAG
1 ATCCGGGTTAAT-TCCCGAAG
109236056 ACAATCGAGC
Statistics
Matches: 125, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 1 0.01
40 122 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:109236080 original size:80 final size:80
Alignment explanation
Indices: 109235884--109236095 Score: 207
Period size: 80 Copynumber: 2.7 Consensus size: 80
109235874 ATATCCGGGT
* * * * * * * *
109235884 TAATTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAATTCCCGAAGGCATTTGTGCGAG
1 TAATTCCCGAAGACAATCGAGCGAGTTACCAAATCCGGGTTAAATCCCGAAGGCATTTGCGCGAA
*
109235949 TTACTAAATCCGAGT
66 TTACTAAATCCGAGC
* * * * *
109235964 TAATTCCCGAAGGCAATTGTGTGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAA
1 TAATTCCCGAAGACAATCGAGCGAGTTACCAAATCCGGGTTAAATCCCGAAGGCATTTGCGCGAA
*
109236029 TTACTATAA-CCGGGC
66 TTACTA-AATCCGAGC
* * *
109236044 T-ATGTCCCGAAGACAATCGAGCGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 TAAT-TCCCGAAGACAATCGAGCGAGTTA-CCAAATCCGGGTTAAATCCCGAAGG
109236096 TACGTGATTC
Statistics
Matches: 113, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
79 18 0.16
80 93 0.82
81 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (80 bp):
TAATTCCCGAAGACAATCGAGCGAGTTACCAAATCCGGGTTAAATCCCGAAGGCATTTGCGCGAA
TTACTAAATCCGAGC
Found at i:109236089 original size:120 final size:119
Alignment explanation
Indices: 109235876--109236095 Score: 286
Period size: 120 Copynumber: 1.8 Consensus size: 119
109235866 TTCGAATAAT
* * * * * *
109235876 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAATTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTAAATCCGGGCTAATTCCCGAAGACAAT
* *
109235941 TGTGCGAGTTACTAAATCCGAGTTAATTCCCGAAGGCAATTGTGTGAGTTACCAA
66 CGAGCGAGTTACTAAATCCGAGTTAATT-CCGAAGGCAATTGTGTGAGTTACCAA
109235996 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTATAA-CCGGGCT-ATGTCCCGAAGACA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTA-AATCCGGGCTAAT-TCCCGAAGACA
*
109236059 ATCGAGCGAG-TAGCTATATCCG-GTTAAATTCCGAAGG
64 ATCGAGCGAGTTA-CTAAATCCGAGTT-AATTCCGAAGG
109236096 TACGTGATTC
Statistics
Matches: 87, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
119 14 0.16
120 71 0.82
121 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (119 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTAAATCCGGGCTAATTCCCGAAGACAAT
CGAGCGAGTTACTAAATCCGAGTTAATTCCGAAGGCAATTGTGTGAGTTACCAA
Found at i:109241437 original size:42 final size:42
Alignment explanation
Indices: 109241310--109241439 Score: 152
Period size: 42 Copynumber: 3.1 Consensus size: 42
109241300 ACACATAGTA
* * ***
109241310 TCATATCAATGCTATATCCCAGATATGGTCTTACATGGGGTC
1 TCATATCAATGCCATATCCCAGATATGGTCTTACACGAAATC
* * *
109241352 TCATATCAATGCCAATAGCCTAGCTATGGTCTTACACGAAATC
1 TCATATCAATGCC-ATATCCCAGATATGGTCTTACACGAAATC
* * *
109241395 TCATATCGATGCCATATCCCAGATATGGTCCTACACGTAATC
1 TCATATCAATGCCATATCCCAGATATGGTCTTACACGAAATC
109241437 TCA
1 TCA
109241440 ACTAACCTTA
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 39 0.53
43 34 0.47
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.30
Consensus pattern (42 bp):
TCATATCAATGCCATATCCCAGATATGGTCTTACACGAAATC
Found at i:109249327 original size:16 final size:17
Alignment explanation
Indices: 109249296--109249328 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
109249286 TTCATAAGTA
109249296 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
109249313 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
109249329 GTACTATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:109249676 original size:46 final size:45
Alignment explanation
Indices: 109249591--109249788 Score: 254
Period size: 46 Copynumber: 4.3 Consensus size: 45
109249581 TCCCATCCAC
* * * * * *
109249591 GGTCTTATTTATCTT-TGACATGATGCCATAGTGTCTTTCAACTAT
1 GGTCTTATTCAT-TTCTGTCATGTTGCCATGGTATCTTTCAACCAT
* *
109249636 GGTCTTACTCATTTTCTGTCATGTTGTCATGGTATCTTTCAACCAT
1 GGTCTTATTCA-TTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
* *
109249682 GGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATTTC-TGTCATGTTGCCATGGTATCTTTCAACCAT
109249728 GGTCTTATTCATTTCTCGTCATGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATTTCT-GTCATGTTGCCATGGTATCTTTCAACCAT
*
109249774 GGTCTTATACATTTC
1 GGTCTTATTCATTTC
109249789 ATATCAGAGA
Statistics
Matches: 134, Mismatches: 15, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
45 16 0.12
46 118 0.88
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.43
Consensus pattern (45 bp):
GGTCTTATTCATTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
Found at i:109249730 original size:92 final size:92
Alignment explanation
Indices: 109249614--109249790 Score: 284
Period size: 92 Copynumber: 1.9 Consensus size: 92
109249604 TTTGACATGA
* * *
109249614 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTT-TCTGTCATGTTGTCATGGTATCTTTCAA
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCTC-GTCATGTTGCCATGGTATCTTTCAA
*
109249678 CCATGGTCTTATTCATTTCATGTCACGC
65 CCATGGTCTTATACATTTCATGTCACGC
* *
109249706 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCTCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCTCGTCATGTTGCCATGGTATCTTTCAAC
109249771 CATGGTCTTATACATTTCAT
66 CATGGTCTTATACATTTCAT
109249791 ATCAGAGAGC
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
92 76 0.97
93 2 0.03
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (92 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCTCGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATACATTTCATGTCACGC
Found at i:109260389 original size:93 final size:93
Alignment explanation
Indices: 109260277--109260447 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
109260267 GCCCATAAGT
* *
109260277 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
109260342 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
109260370 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
109260435 CGAGTTCGGATGC
66 CGAGTTCGGATGC
109260448 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:109260444 original size:46 final size:46
Alignment explanation
Indices: 109260269--109260444 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
109260259 TGTAACCCGC
* * *
109260269 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
109260315 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
109260365 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
109260408 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
109260445 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:109262863 original size:30 final size:30
Alignment explanation
Indices: 109262819--109262907 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
109262809 CAAAGATAAC
109262819 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
109262848 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
109262878 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
109262908 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:109262867 original size:15 final size:15
Alignment explanation
Indices: 109262819--109262898 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
109262809 CAAAGATAAC
*
109262819 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
109262833 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
109262848 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
109262863 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
109262878 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
109262893 AAGAAA
1 AAGAAA
109262899 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:109262907 original size:15 final size:15
Alignment explanation
Indices: 109262830--109262907 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
109262820 AGAAAACCGA
109262830 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
109262845 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
109262859 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
109262874 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
109262890 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
109262905 ATA
1 ATA
109262908 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:109265954 original size:93 final size:93
Alignment explanation
Indices: 109265842--109266013 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
109265832 GCCCATAAGT
* *
109265842 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
109265907 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
109265935 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
109266000 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
109266014 AAATCCTAGT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:109266009 original size:46 final size:46
Alignment explanation
Indices: 109265834--109266009 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
109265824 TGTAACCCGC
* * *
109265834 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
109265880 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
109265930 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
109265973 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
109266010 TGCCAAATCC
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:109272559 original size:27 final size:28
Alignment explanation
Indices: 109272529--109272598 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
109272519 ATAATAAGTC
*
109272529 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
109272556 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
109272584 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
109272599 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:109274567 original size:16 final size:17
Alignment explanation
Indices: 109274525--109274571 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
109274515 ATTTTATCTC
*
109274525 ATGATATTTTTAAAATTA
1 ATGA-ATTTTTAAAATAA
*
109274543 ATTAA-TTTTAAAA-AA
1 ATGAATTTTTAAAATAA
109274558 ATGAATTTTTAAAA
1 ATGAATTTTTAAAA
109274572 CCCACACGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 5 0.20
16 16 0.64
17 1 0.04
18 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (17 bp):
ATGAATTTTTAAAATAA
Found at i:109275667 original size:5 final size:5
Alignment explanation
Indices: 109275657--109275703 Score: 69
Period size: 5 Copynumber: 9.6 Consensus size: 5
109275647 CCCTATGTTC
* *
109275657 TTTAT TTTAT TTTAT TTTAT TTCAT TTTAT GTTAT TTTA- TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
109275704 CTAAATATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
4 4 0.11
5 33 0.89
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:109275685 original size:20 final size:19
Alignment explanation
Indices: 109275657--109275703 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
109275647 CCCTATGTTC
*
109275657 TTTATTTTATTTTATTTTA
1 TTTATTTTATGTTATTTTA
109275676 TTTCATTTTATGTTATTTTA
1 TTT-ATTTTATGTTATTTTA
109275696 TTTATTTT
1 TTTATTTT
109275704 CTAAATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTATTTTATGTTATTTTA
Found at i:109277363 original size:23 final size:24
Alignment explanation
Indices: 109277333--109277377 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
109277323 TTTATTTTCT
109277333 TTTAATTT-TA-ATTTTTGTTTTA
1 TTTAATTTATATATTTTTGTTTTA
*
109277355 TTTATATTTATATTTTTTTGTTT
1 TTTA-ATTTATATATTTTTGTTT
109277378 ATTGTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 4 0.21
24 2 0.11
25 9 0.47
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (24 bp):
TTTAATTTATATATTTTTGTTTTA
Found at i:109278372 original size:14 final size:14
Alignment explanation
Indices: 109278349--109278390 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
109278339 ATTGTTCTAA
109278349 AAAAAT-AAAAAAT
1 AAAAATAAAAAAAT
* *
109278362 AAAAGTGAAAAAAT
1 AAAAATAAAAAAAT
109278376 AAAAATAAAAAAAT
1 AAAAATAAAAAAAT
109278390 A
1 A
109278391 CATATATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 5 0.20
14 20 0.80
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Found at i:109286286 original size:93 final size:93
Alignment explanation
Indices: 109286132--109286485 Score: 337
Period size: 93 Copynumber: 3.9 Consensus size: 93
109286122 TTTATGCGCC
* * *
109286132 AGTGTAAGACGTGTCTGGGACATGC--CA---C-ATTATGATAGCTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCGCTACTATGATAGCCAGTGTAAGACCATGTCTGG
* *
109286191 GACATGGCATCGGCATCTAGACGAGGGCT
66 GACATGGCATCGGCATCAAGA-GAGTGCT
*
109286220 AGTGTAAGACATGTTTGGGA-ATGCATCAGC-CATACTATGATAGCCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCGC-TACTATGATAGCCAGTGTAAGACCATGTCTG
*
109286283 GGACATGGCATCGGCA-CAGAGATGAGTGCC
65 GGACATGGCATCGGCATCA-AGA-GAGTGCT
* * *
109286313 AGTGTAAGACATGTCTGGGACATGCATC-GGGCTCGAC-AGAGATAGCCAATGTAAGA--AGTGT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCGCT--ACTA-TGATAGCCAGTGTAAGACCA-TGT
* * *
109286374 TTGGGACA-GGCATCAGC-T-AAGAGTTGTGCT
62 CTGGGACATGGCATCGGCATCAAGAG-AGTGCT
* * *
109286404 AGTGTAAGACATGTCTAGGACATGCATCAGCACGCGTA-TATGAGAGCCAGTGTAAGACAATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAG--CGC-TACTATGATAGCCAGTGTAAGACCATGTC
109286468 TGGGACATGGCATCGGCA
63 TGGGACATGGCATCGGCA
109286486 ATATATCCCA
Statistics
Matches: 219, Mismatches: 23, Indels: 41
0.77 0.08 0.14
Matches are distributed among these distances:
87 4 0.02
88 18 0.08
89 2 0.01
90 1 0.00
91 35 0.16
92 17 0.08
93 94 0.43
94 30 0.14
95 18 0.08
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCGCTACTATGATAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGCATCAAGAGAGTGCT
Found at i:109286366 original size:47 final size:43
Alignment explanation
Indices: 109286129--109286485 Score: 208
Period size: 47 Copynumber: 7.8 Consensus size: 43
109286119 TGATTTATGC
* *
109286129 GCCAGTGTAAGACGTGTCTGGGACATG---C--CACATTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACA-GA-GATA
* **
109286169 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCTAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA-C-AGA-GATA
* * * * *
109286217 GCTAGTGTAAGACATGTTTGGGA-ATGCATCAGCCATACTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GGCACA-GA-GATA
109286262 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACAGAGAT-A
109286308 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGGCTCGACAGAGATA
1 --GCCAGTGTAAGACATGTCTGGGACATGCATC-GG--C-ACAGAGATA
* * * * * *
109286357 GCCAATGTAAGA-AGTGTTTGGGACAGGCATCAGCTA-AGAGTTGT
1 GCCAGTGTAAGACA-TGTCTGGGACATGCATCGGC-ACAGAGAT-A
* * * * *
109286401 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCACGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCA--C--AGA-GATA
109286449 GCCAGTGTAAGACAATGTCTGGGACATGGCATCGGCA
1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCA
109286486 ATATATCCCA
Statistics
Matches: 248, Mismatches: 37, Indels: 54
0.73 0.11 0.16
Matches are distributed among these distances:
40 11 0.04
41 13 0.05
42 1 0.00
43 6 0.02
44 30 0.12
45 24 0.10
46 24 0.10
47 60 0.24
48 47 0.19
49 16 0.06
50 16 0.06
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (43 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGATA
Found at i:109289790 original size:47 final size:47
Alignment explanation
Indices: 109289705--109289988 Score: 388
Period size: 47 Copynumber: 6.0 Consensus size: 47
109289695 TTAGGATTTT
* ** * * * *
109289705 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
109289752 ATATGATGAATATGAACATGCATTTGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
109289799 ATGTGATGAATGTGAACATGTACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
109289846 ATGTGATGAATGTGAATATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
109289893 ATGTGATGAATATGAACATGCACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
109289940 ATGTGATAAATGTAAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
109289987 AT
1 AT
109289989 AACATGCATA
Statistics
Matches: 207, Mismatches: 30, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 207 1.00
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:109290000 original size:35 final size:35
Alignment explanation
Indices: 109289954--109290023 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
109289944 GATAAATGTA
109289954 AACATGCATATATGTGATAAGGCAGAATGGCCAAT
1 AACATGCATATATGTGATAAGGCAGAATGGCCAAT
109289989 AACATGCATATATGTGATAAGGCAGAATGGCCAAT
1 AACATGCATATATGTGATAAGGCAGAATGGCCAAT
109290024 GTGATGAACG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (35 bp):
AACATGCATATATGTGATAAGGCAGAATGGCCAAT
Found at i:109290064 original size:82 final size:82
Alignment explanation
Indices: 109289907--109290065 Score: 194
Period size: 82 Copynumber: 1.9 Consensus size: 82
109289897 GATGAATATG
* * * *
109289907 AACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTAAACATGCATATATGTGAT
1 AACATGCACATATGTGATAAGGCAGAATGGCCAATGTGATAAACGGAAACATGCATATATGTGAG
*
109289972 AAGGCAGAATGGCCAAT
66 AAAGCAGAATGGCCAAT
* * * * * *
109289989 AACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGCGGAA-GTGTATATATGTGG
1 AACATGCACATATGTGATAAGGCAGAATGGCCAATGTGATAAACG-GAAACATGCATATATGTGA
*
109290053 GAAAGCCGAATGG
65 GAAAGCAGAATGG
109290066 TTAATGCGAA
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
82 62 0.97
83 2 0.03
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (82 bp):
AACATGCACATATGTGATAAGGCAGAATGGCCAATGTGATAAACGGAAACATGCATATATGTGAG
AAAGCAGAATGGCCAAT
Found at i:109290098 original size:46 final size:46
Alignment explanation
Indices: 109290045--109290135 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
109290035 GGAAGTGTAT
* * *
109290045 ATATGTGGGAAAGCCGAATGGTTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* * *
109290091 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
109290136 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.07, G:0.32, T:0.27
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:109294118 original size:39 final size:39
Alignment explanation
Indices: 109294064--109294189 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
109294054 TTCAGTGATG
*
109294064 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
109294103 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTAGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * *
109294142 TATATCCGGAGTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
109294181 TATGTCCGG
1 TATATCCGG
109294190 GCTAAAGTCC
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:109294203 original size:39 final size:38
Alignment explanation
Indices: 109294079--109294223 Score: 155
Period size: 39 Copynumber: 3.7 Consensus size: 38
109294069 CCAGACTTAG
* * *
109294079 GGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAG
1 GGTCCGCAGGCTACGTGCTGGAATTATATCCGGGC-TAA
* * *
109294118 GGTCCGCAGGCTATGTGCTAGAATTATATCCGGAGTTAA
1 GGTCCGCAGGCTACGTGCTGGAATTATATCCGG-GCTAA
* *
109294157 GGTCCGCAGGCTACGTGCTGGAAATATGTCCGGGCTAA
1 GGTCCGCAGGCTACGTGCTGGAATTATATCCGGGCTAA
* * * *
109294195 AGTCCCGCAGGCTTCGAGCTGGTATTATA
1 GGT-CCGCAGGCTACGTGCTGGAATTATA
109294224 CTGGGTTTAG
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
38 6 0.07
39 83 0.93
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.26
Consensus pattern (38 bp):
GGTCCGCAGGCTACGTGCTGGAATTATATCCGGGCTAA
Found at i:109294203 original size:78 final size:78
Alignment explanation
Indices: 109294064--109294207 Score: 191
Period size: 78 Copynumber: 1.8 Consensus size: 78
109294054 TTCAGTGATG
* * * **
109294064 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCAGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
109294129 TATGTGCTAGAAT
66 TATGTGCTAGAAT
* * * *
109294142 TATATCCGGAGTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATATCCAGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGG
109294206 CT
65 CT
109294208 TCGAGCTGGT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
77 4 0.07
78 52 0.93
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (78 bp):
TATATCCAGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGTGCTAGAAT
Found at i:109295828 original size:21 final size:21
Alignment explanation
Indices: 109295802--109295857 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
109295792 CGGCCTATAG
109295802 CACGGGCGTGTCCCAGGGTCA
1 CACGGGCGTGTCCCAGGGTCA
109295823 CACGGGCGTGTCCCAGGGTCA
1 CACGGGCGTGTCCCAGGGTCA
* *
109295844 CAAGGGTGTGTCCC
1 CACGGGCGTGTCCC
109295858 TCAAACCACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.14, C:0.32, G:0.38, T:0.16
Consensus pattern (21 bp):
CACGGGCGTGTCCCAGGGTCA
Found at i:109296824 original size:23 final size:23
Alignment explanation
Indices: 109296798--109296857 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
109296788 CATCACTGTG
* *
109296798 TATGCCACATAGGCATTACAGAA
1 TATGCCACAAAGGCATCACAGAA
** * *
109296821 TATGCCACCCAGACATCACAGAC
1 TATGCCACAAAGGCATCACAGAA
109296844 TATGCCACAAAGGC
1 TATGCCACAAAGGC
109296858 TTTATAAAGA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.37, C:0.30, G:0.17, T:0.17
Consensus pattern (23 bp):
TATGCCACAAAGGCATCACAGAA
Found at i:109302358 original size:40 final size:39
Alignment explanation
Indices: 109302314--109302467 Score: 164
Period size: 39 Copynumber: 3.9 Consensus size: 39
109302304 AAGTGACCAT
* * * *
109302314 ATCCGGACTAAGATCTGAAGGCGTTCGTGTGAGTTAATAA
1 ATCCGGACTAAG-CCCGAAGGCATTCGTGCGAGTTAATAA
** *
109302354 ATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTAATAA
1 ATCCGGACTAAGCCCGAAGGCATTCGTGCGAGTTAATAA
** * *
109302393 ATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGCCCGAAGGCATTCGTGCGAGTTAATAA
* **
109302432 ACCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA
1 ATCCGGACTAAG-CCCGAAGGCATTCGTGCGAGTTA
109302468 CTATAACCGG
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
39 71 0.69
40 32 0.31
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (39 bp):
ATCCGGACTAAGCCCGAAGGCATTCGTGCGAGTTAATAA
Found at i:109302387 original size:39 final size:40
Alignment explanation
Indices: 109302330--109302505 Score: 225
Period size: 39 Copynumber: 4.5 Consensus size: 40
109302320 ACTAAGATCT
* * *
109302330 GAAGGCGTTCGTGTGAGTTAATAAATCCGGGTTAAG-CCC
1 GAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTCCC
109302369 GAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAG-CCC
1 GAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTCCC
* *
109302408 GAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTCCC
* * *
109302448 GAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTCCC
1 GAAGGCATTTGTGCGAGTTAATA-AATCC-GGGTTAAGTCCC
*
109302488 GAAGGCATTTGAGCGAGT
1 GAAGGCATTTGTGCGAGT
109302506 CGTTATATCC
Statistics
Matches: 125, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 70 0.56
40 48 0.38
41 7 0.06
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (40 bp):
GAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTCCC
Found at i:109302521 original size:79 final size:79
Alignment explanation
Indices: 109302351--109302506 Score: 210
Period size: 79 Copynumber: 2.0 Consensus size: 79
109302341 TGTGAGTTAA
*
109302351 TAAATCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCA
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCA
* *
109302415 TTTGTGCGAGTTAC
66 TTTGAGCGAGTCAC
* * *
109302429 TAAACCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTCCCGAAG
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAATA-AATCC-GGGTTAAG-CCCGAAG
109302492 GCATTTGAGCGAGTC
63 GCATTTGAGCGAGTC
109302507 GTTATATCCG
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 14 0.21
79 27 0.40
80 27 0.40
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (79 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCA
TTTGAGCGAGTCAC
Found at i:109305357 original size:46 final size:46
Alignment explanation
Indices: 109305305--109305482 Score: 211
Period size: 46 Copynumber: 3.8 Consensus size: 46
109305295 GATATTTGGG
*
109305305 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
* * *
109305351 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A
109305396 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
1 --CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
* * * *
109305444 CA-CCCAAGCTCATTGAGTTGAGTCTGAGTTCGCTTATGG
1 CATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
109305483 GCAGGTTACA
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
43 5 0.04
45 7 0.06
46 61 0.54
47 31 0.27
48 3 0.03
50 6 0.05
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
Found at i:109305462 original size:93 final size:93
Alignment explanation
Indices: 109305303--109305475 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
109305293 CGGATATTTG
* * *
109305303 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACATCCCAACTCATTGAG
109305368 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
109305396 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACA-CCCAAGCTCATTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACATCCCAA-CTCATTGA
*
109305460 GTTGAGTCTGAGTTCG
65 GTTGAGTCCGAGTTCG
109305476 CTTATGGGCA
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 4 0.05
93 71 0.95
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACATCCCAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:109308544 original size:31 final size:31
Alignment explanation
Indices: 109308509--109308585 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
109308499 TAAACCTTTC
* * *
109308509 AAAGTGCTCAAATAAGGGACGAAA-GTTATTG
1 AAAGTGCTCAAATAAGAG-CCAAATATTATTG
*
109308540 AAAGTGCTCAAATAAGAGCCAAATATTTTTG
1 AAAGTGCTCAAATAAGAGCCAAATATTATTG
109308571 AAAGTGCTCAAATAA
1 AAAGTGCTCAAATAA
109308586 CAGCTTCTCG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 4 0.10
31 37 0.90
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (31 bp):
AAAGTGCTCAAATAAGAGCCAAATATTATTG
Found at i:109308966 original size:18 final size:18
Alignment explanation
Indices: 109308945--109308987 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
109308935 TTTTAATTAA
109308945 TAATTATAATTTAAAT-TC
1 TAATTAT-ATTTAAATATC
* *
109308963 TAATTATTTTTAAATATG
1 TAATTATATTTAAATATC
109308981 TAATTAT
1 TAATTAT
109308988 CATAATTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (18 bp):
TAATTATATTTAAATATC
Found at i:109316981 original size:15 final size:15
Alignment explanation
Indices: 109316961--109316990 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
109316951 AACTCGAATC
109316961 GTTACCAATTCGAGT
1 GTTACCAATTCGAGT
109316976 GTTACCAATTCGAGT
1 GTTACCAATTCGAGT
109316991 CTGAGAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (15 bp):
GTTACCAATTCGAGT
Found at i:109317081 original size:26 final size:26
Alignment explanation
Indices: 109317045--109317097 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
109317035 GAGCTCGTAA
109317045 TAGTTCTGAGCCCAAGATCAATTTGG
1 TAGTTCTGAGCCCAAGATCAATTTGG
109317071 TAGTTCTGAGCCCAAGATCAATTTGG
1 TAGTTCTGAGCCCAAGATCAATTTGG
109317097 T
1 T
109317098 TTGTGTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (26 bp):
TAGTTCTGAGCCCAAGATCAATTTGG
Found at i:109318136 original size:11 final size:11
Alignment explanation
Indices: 109318111--109318150 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
109318101 GAGAAAACAA
109318111 CAAAAC-ATAG
1 CAAAACAATAG
*
109318121 AAAAACAATAG
1 CAAAACAATAG
*
109318132 CAAAACAACAG
1 CAAAACAATAG
109318143 CAAAACAA
1 CAAAACAA
109318151 CATGATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 5 0.19
11 21 0.81
ACGTcount: A:0.68, C:0.20, G:0.07, T:0.05
Consensus pattern (11 bp):
CAAAACAATAG
Found at i:109321466 original size:27 final size:27
Alignment explanation
Indices: 109321428--109321481 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
109321418 TATTAACTTA
109321428 TTCAAAAGATTGAGTAAAACTAAAATT
1 TTCAAAAGATTGAGTAAAACTAAAATT
109321455 TTCAAAAGATTGAGTAAAACTAAAATT
1 TTCAAAAGATTGAGTAAAACTAAAATT
109321482 AACTAAGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (27 bp):
TTCAAAAGATTGAGTAAAACTAAAATT
Found at i:109325926 original size:16 final size:17
Alignment explanation
Indices: 109325895--109325931 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
109325885 AGCATATTTC
*
109325895 AAATAGTATAATAATAA
1 AAATAATATAATAATAA
109325912 AAATAATAT-ATAATAA
1 AAATAATATAATAATAA
109325928 AAAT
1 AAAT
109325932 GTATTATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
AAATAATATAATAATAA
Found at i:109326424 original size:23 final size:23
Alignment explanation
Indices: 109326398--109326448 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
109326388 TGATTTTTAA
*
109326398 ATTTTCAATTATTTAGTGATAAT
1 ATTTACAATTATTTAGTGATAAT
**
109326421 ATTTAGGATTATTTAGTGATAAT
1 ATTTACAATTATTTAGTGATAAT
109326444 ATTTA
1 ATTTA
109326449 GGAAAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (23 bp):
ATTTACAATTATTTAGTGATAAT
Found at i:109326425 original size:13 final size:13
Alignment explanation
Indices: 109326407--109326449 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
109326397 AATTTTCAAT
109326407 TATTTAGTGATAA
1 TATTTAGTGATAA
109326420 TATTTAG-GAT--
1 TATTTAGTGATAA
109326430 TATTTAGTGATAA
1 TATTTAGTGATAA
109326443 TATTTAG
1 TATTTAG
109326450 GAAAAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:109326449 original size:23 final size:23
Alignment explanation
Indices: 109326405--109326451 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
109326395 TAAATTTTCA
109326405 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
109326428 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
109326451 A
1 A
109326452 AAAATTTAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (23 bp):
ATTATTTAGTGATAATATTTAGG
Found at i:109327742 original size:18 final size:17
Alignment explanation
Indices: 109327711--109327744 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
109327701 TCATTGATGC
109327711 ATATATATAAACTATTA
1 ATATATATAAACTATTA
*
109327728 ATATATTATATACTATT
1 ATATA-TATAAACTATT
109327745 TGACATGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATATAAACTATTA
Found at i:109331467 original size:46 final size:45
Alignment explanation
Indices: 109331372--109331534 Score: 163
Period size: 46 Copynumber: 3.6 Consensus size: 45
109331362 AGGCCGACAC
* * *
109331372 CATGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTAGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTACATCTTG-AGCCGATG
109331417 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTTGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGC-TACATCTTGA-GCCGATG
* * * * *
109331463 CATGTCCCAGACAT-GTTTTACACTAGCT-CTTGTTTCAATGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTACAT-CTT-GA-GCCGATG
109331509 CCATGTCCCAGACATGGTCTTACACT
1 -CATGTCCCAGACATGGTCTTACACT
109331535 AGCACACAAA
Statistics
Matches: 101, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
44 14 0.14
45 18 0.18
46 46 0.46
47 14 0.14
48 9 0.09
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGGTCTTACACTGGCTACATCTTGAGCCGATG
Found at i:109332304 original size:20 final size:20
Alignment explanation
Indices: 109332279--109332318 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
109332269 ATCCTTCCAC
109332279 AAAAGTTGTTTATTACACAA
1 AAAAGTTGTTTATTACACAA
*
109332299 AAAAGTTGTTTATTTCACAA
1 AAAAGTTGTTTATTACACAA
109332319 CCAAGACTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (20 bp):
AAAAGTTGTTTATTACACAA
Found at i:109334592 original size:40 final size:40
Alignment explanation
Indices: 109334548--109334640 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 40
109334538 CGTTTGAATG
* * *
109334548 AAAAATGCTGCTAAAGAACGAGCATTAGCAGCGCTTTTCA
1 AAAAACGCTGCTAAAGAACGAACATTAGCAGCACTTTTCA
** * *
109334588 AAAAACGCCACTAAAGAACGAACATTAGCGGCACTTTTTA
1 AAAAACGCTGCTAAAGAACGAACATTAGCAGCACTTTTCA
109334628 AAAAACGCTGCTA
1 AAAAACGCTGCTA
109334641 TATTTTTAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (40 bp):
AAAAACGCTGCTAAAGAACGAACATTAGCAGCACTTTTCA
Found at i:109334911 original size:75 final size:75
Alignment explanation
Indices: 109334784--109334949 Score: 221
Period size: 75 Copynumber: 2.2 Consensus size: 75
109334774 AATGCTTGAT
*
109334784 CTTTAGCGGAGCTTTTCAAAAAACGCCGCAAAAAATTTAACACAACGCCGTCGTTTTGTATTGAG
1 CTTTAGCGGAGCTTTTCAAAAAACGCCGCAAAAAATTTAACACAACGCCGTCGTTTTGTATTAAG
109334849 CCTTTAGTGG
66 CCTTTAGTGG
* * * *
109334859 CTTTAGCAGCGCTTTT-AAAAAACGCCGCAAAAGAATTTTGAA-A-AATGTCGTCGTTTTGTATT
1 CTTTAGCGGAGCTTTTCAAAAAACGCCGCAAAA-AA-TTT-AACACAACGCCGTCGTTTTGTATT
*
109334921 AAGCTTTTAGTGG
63 AAGCCTTTAGTGG
*
109334934 CTTTAGCGGTGCTTTT
1 CTTTAGCGGAGCTTTT
109334950 GTAAAAACAC
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
74 16 0.20
75 58 0.73
76 4 0.05
77 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (75 bp):
CTTTAGCGGAGCTTTTCAAAAAACGCCGCAAAAAATTTAACACAACGCCGTCGTTTTGTATTAAG
CCTTTAGTGG
Found at i:109335264 original size:22 final size:22
Alignment explanation
Indices: 109335239--109335287 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
109335229 TGTTAAATAT
*
109335239 TTTAAGG-TTTATGGATTATGAG
1 TTTAAGGAATTATGGATTATG-G
*
109335261 TTT-AGGAATTATGGTTTATGG
1 TTTAAGGAATTATGGATTATGG
109335282 TTTAAG
1 TTTAAG
109335288 AGTTGGGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.47
Consensus pattern (22 bp):
TTTAAGGAATTATGGATTATGG
Found at i:109336354 original size:7 final size:7
Alignment explanation
Indices: 109336338--109336405 Score: 64
Period size: 7 Copynumber: 9.4 Consensus size: 7
109336328 AAATCTTCAA
109336338 AAAAATTT
1 AAAAA-TT
109336346 AAAAATT
1 AAAAATT
*
109336353 AAAAATA
1 AAAAATT
*
109336360 AAAAAAT
1 AAAAATT
*
109336367 AAAAAAT
1 AAAAATT
*
109336374 AAAAAAT
1 AAAAATT
109336381 AAAAACTT
1 AAAAA-TT
109336389 AAAAATT
1 AAAAATT
* *
109336396 TAATATT
1 AAAAATT
109336403 AAA
1 AAA
109336406 TATTTTAATC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
7 41 0.79
8 11 0.21
ACGTcount: A:0.74, C:0.01, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAAATT
Found at i:109341850 original size:22 final size:22
Alignment explanation
Indices: 109341822--109341866 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
109341812 AGGGGGAGTG
109341822 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
109341844 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
109341866 T
1 T
109341867 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:109343609 original size:30 final size:29
Alignment explanation
Indices: 109343515--109343616 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
109343505 TATAGTGAAT
* * *
109343515 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
109343544 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
109343572 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
109343602 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
109343617 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:109349417 original size:114 final size:113
Alignment explanation
Indices: 109349214--109350113 Score: 626
Period size: 114 Copynumber: 7.9 Consensus size: 113
109349204 TTGAGATGTT
* * * * *
109349214 AATTGAGGTGTATAAATGTTGGT-AATTG-AGATGTTAAAGTGCAGCAAATTGAAGTGTTTAAAT
1 AATTGAAGTGTTTAAATGCT-GTAAATTGAAG-TGTTAAA-TGCTGCAAATTGAAGTGTTTAAGT
* *
109349277 GCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTAAATGCTGTA
63 GCTGCAAATTGAAGTGTTTAAA-TGCTGTAAATTGAAGTGTTAAATGCTGTA
* * * * *
109349328 AATTGAATTATTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGTAAATTGAAGTGTTTAAGTAC
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGTTTAAGTGC
** * *
109349393 TGCAAATTGAAGTGTTTAGTTGCTGGAAATTG-AGATGCTT-TATCGCTGT-
65 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG-TG-TTAAAT-GCTGTA
* * * *
109349442 AATTGAGGTGTATAAATG-TAGTTAATTG-AGATGTTAAAGTGCTGCAAATTGAAGTGTTAAAGT
1 AATTGAAGTGTTTAAATGCT-GTAAATTGAAG-TGTTAAA-TGCTGCAAATTGAAGTGTTTAAGT
*
109349505 GCTGCAAATTGAAGTG-TTAAATGTTGTAAATTGAAGTGTTTAAATGCTGTA
63 GCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTG-TTAAATGCTGTA
* * * *
109349556 AATTGAAGTGCTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTT-AGTTG
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGTTTAAG-TG
* * * * *
109349620 CTGGAAATTG-AGATGTTT-TATCGCTGT-AATTGAGGTGTATAAATGTTGTT
64 CTGCAAATTGAAG-TGTTTAAAT-GCTGTAAATTGAAGTGT-TAAATGCTGTA
* *
109349670 AATT-AAGATG-TTAAATTGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAAT
1 AATTGAAG-TGTTTAAA-TGCTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGTTTAAGT
* * * * * *
109349733 GCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTATTTAAGTACTGCA
63 GCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGT-GTTAAATGCTGTA
** * ** * * * * *
109349785 AATTGAAGTGTTTAGTTGCTGGAAATTG-AGATGTTTTATCGCTG-TAATTGAGGTGTATAAATA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGTTAAAT-GCTGCAAATTGAAGTGTTTAAGTG
* ** * * * *
109349848 TTGTTAATTG-AGATG-TTAAAGTGCTGCACATTGAAGTGTTTGAATGTTGTA
64 CTGCAAATTGAAG-TGTTTAAA-TGCTGTAAATTGAAGTG-TTAAATGCTGTA
* * * * * *
109349899 AATTGAAGTGTTTAAATGTTTTCAATTGAAGTGTTTAAGTACTACAAATTGAAGTGTTT-AGTTG
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGTTTAAG-TG
* * * * * *
109349963 CTAG-AAATTG-AGATGTTTTAACGCTGT-AATTGAGGAGTATAAATGTTGTT
64 CT-GCAAATTGAAG-TGTTTAAATGCTGTAAATTGAAGTGT-TAAATGCTGTA
* ** * * * * *
109350013 AATTG-AGAT-ATTAAAGTGCTACAAATTGAAATGTTTAATTGTTGTAAATTGAAGTGTTAAAGT
1 AATTGAAG-TGTTTAAA-TGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGTTTAAGT
* *
109350076 GCTGCAAATTGAATTGTTTAAATGTTGTAAATTGAAGT
63 GCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGT
109350114 TTTTAAGTAC
Statistics
Matches: 615, Mismatches: 122, Indels: 97
0.74 0.15 0.12
Matches are distributed among these distances:
113 67 0.11
114 419 0.68
115 117 0.19
116 12 0.02
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.38
Consensus pattern (113 bp):
AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAATGCTGCAAATTGAAGTGTTTAAGTGCT
GCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAATGCTGTA
Found at i:109349724 original size:160 final size:160
Alignment explanation
Indices: 109349259--109350096 Score: 683
Period size: 160 Copynumber: 5.2 Consensus size: 160
109349249 AAAGTGCAGC
* * * * **
109349259 AAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTG-TTAAATG
1 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTG
*
109349323 CT-GTAAATTGA-ATTATTTAAATGCTGTAAATTGAAG-TGCT-TAAATGTTGTAAATTGA-AGT
66 CTAG-AAATTGAGA-TGTTT-AATGCTGT-AATTGAAGATG-TATAAATGTTGTAAATTGAGA-T
* * ** * *
109349383 GTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGG
125 GTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGT
* * * **
109349419 AAATTG-AGATGCTTT-A-TCGCTG-TAATTGAGGTGTATAAATGTA--GTTAATTG-AGATGTT
1 AAATTGAAG-TG-TTTAAGT-GCTGCAAATTGAAGTGT-TTAA-GTACTGCAAATTGAAG-TGTT
* * *
109349477 AAAG-TGCT-GCAAATTGA-AGTGTTAAAGTGCTGCAAATTGAAG-TGT-TAAATGTTGTAAATT
60 -TAGTTGCTAG-AAATTGAGA-TGTTTAA-TGCTG-TAATTGAAGATGTATAAATGTTGTAAATT
* *
109349537 GA-AGTGTTTAAA-TGCTGTAAATTGAAGTGCTTAAATGTTGT
120 GAGA-TG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGT
* * *
109349578 AAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTT-AGTTGCTGGAAATTG-AGATGTTTTA-
1 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAG-TACTGCAAATTGAAG-TG-TTTAG
* * * * * * *
109349640 TCGCT-GTAATTGAGGTGTATAAATGTTGTTAATT-AAGATGT-TAAATTGCTGCAAATTGA-AG
63 TTGCTAGAAATTGAGATGT-TTAATGCTG-TAATTGAAGATGTATAAA-TGTTGTAAATTGAGA-
*
109349701 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGT
124 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGT
* * * *
109349738 AAATTGAAGTGTTTAAATGTTGTAAATTGAAGTATTTAAGTACTGCAAATTGAAGTGTTTAGTTG
1 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTG
* * * * *
109349803 CTGGAAATTGAGATGTTTTATCGCTGTAATTG-AGGTGTATAAATATTGTTAATTGAGATGTTAA
66 CTAGAAATTGAGATGTTTAAT-GCTGTAATTGAAGATGTATAAATGTTGTAAATTGAGATGTTAA
* *
109349867 AGTGCTGCACATTGAAGTGTTTGAATGTTGT
130 AGTGCTGCAAATTGAAGTGTTTAAATGTTGT
* * * *
109349898 AAATTGAAGTGTTTAAATGTTTTC-AATTGAAGTGTTTAAGTACTACAAATTGAAGTGTTTAGTT
1 AAATTGAAGTGTTTAAGTG-CTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTT
* * * *
109349962 GCTAGAAATTGAGATGTTTTAACGCTGTAATTGAGGA-GTATAAATGTTGTTAATTGAGATATTA
65 GCTAGAAATTGAGATG-TTTAATGCTGTAATTGAAGATGTATAAATGTTGTAAATTGAGATGTTA
* * *
109350026 AAGTGCTACAAATTGAAATGTTTAATTGTTGT
129 AAGTGCTGCAAATTGAAGTGTTTAAATGTTGT
* *
109350058 AAATTGAAGTGTTAAAGTGCTGCAAATTGAATTGTTTAA
1 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAA
109350097 ATGTTGTAAA
Statistics
Matches: 560, Mismatches: 81, Indels: 74
0.78 0.11 0.10
Matches are distributed among these distances:
157 1 0.00
158 10 0.02
159 115 0.21
160 396 0.71
161 38 0.07
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.38
Consensus pattern (160 bp):
AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTG
CTAGAAATTGAGATGTTTAATGCTGTAATTGAAGATGTATAAATGTTGTAAATTGAGATGTTAAA
GTGCTGCAAATTGAAGTGTTTAAATGTTGT
Found at i:109349759 original size:183 final size:183
Alignment explanation
Indices: 109349259--109350143 Score: 855
Period size: 183 Copynumber: 4.9 Consensus size: 183
109349249 AAAGTGCAGC
* *
109349259 AAATTGA-AGTGTTTAAATGCTGTAAATTGA-AGTGTTAAAGTGCTGCAAATTGAAG-TGTTAAA
1 AAATTGAGA-TGTATAAATGCTGTTAATTGAGA-TGTTAAAGTGCTGCAAATTGAAGATGTTAAA
* * * *
109349321 -TGCTGTAAATTGAATTATTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGTAAATTGAAGTGT
64 GTGCTGCAAATTGAAGT-GTTAAATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGT
* * *
109349385 TTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGAAATTGAGATGCTTTATCGCTG
128 TTAAATACTGCAAATTGAAGTGTTTAGTTACTGCAAATTGAGATGCTTTATCGCTG
* *
109349441 TAATTGAGGTGTATAAATG-TAGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAG-TGTTAAAG
1 AAATTGAGATGTATAAATGCT-GTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGATGTTAAAG
* * *
109349504 TGCTGCAAATTGAAGTGTTAAATGTTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTT
65 TGCTGCAAATTGAAGTGTTAAATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTT
** * *
109349569 AAATGTTGTAAATTGAAGTGTTTAAG-TACTGCAAATTGA-AGTG-TTTAGTTGCTGG
130 AAATACTGCAAATTGAAGTGTTT-AGTTACTGCAAATTGAGA-TGCTTTA-TCGCT-G
** * * **
109349624 AAATTGAGATGT-TTTATCGCTG-TAATTGAGGTGTATAAA-TGTTGTTAATT-AAGATGTTAAA
1 AAATTGAGATGTATAAAT-GCTGTTAATTGAGATGT-TAAAGTGCTGCAAATTGAAGATGTTAAA
* * *
109349685 TTGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGT
64 GTGCTGCAAATTGAAGTGTTAAA-TGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGT
** * * *
109349750 TTAAATGTTGTAAATTGAAGTATTTAAG-TACTGCAAATTGA-AGTG-TTTAGTTGCTGG
128 TTAAATACTGCAAATTGAAGTGTTT-AGTTACTGCAAATTGAGA-TGCTTTA-TCGCT-G
** * ** **
109349807 AAATTGAGATGT-TTTATCGCTG-TAATTGAGGTGTATAAA-TATTGTTAATTG-AGATGTTAAA
1 AAATTGAGATGTATAAAT-GCTGTTAATTGAGATGT-TAAAGTGCTGCAAATTGAAGATGTTAAA
* * * * *
109349868 GTGCTGCACATTGAAGTGTTTGAATGTTGTAAATTGAAGTGTTTAAATGTTTTCAATTGAAGTGT
64 GTGCTGCAAATTGAAGTG-TTAAATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGT
* * * * *
109349933 TTAAGTACTACAAATTGAAGTGTTTAGTTGCTAG-AAATTGAGATGTTTTAACGCTG
128 TTAAATACTGCAAATTGAAGTGTTTAGTTACT-GCAAATTGAGATGCTTTATCGCTG
* * * * * *
109349989 TAATTGAGGA-GTATAAATGTTGTTAATTGAGATATTAAAGTGCTACAAATTGAA-ATGTTTAAT
1 AAATTGA-GATGTATAAATGCTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGATGTTAAAG
* * * * *
109350052 TGTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAATTGTTTAAATGTTGTAAATTGAAGTTTT
65 TGCTGCAAATTGAAGTGTTAAA-TGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTT
* *
109350117 TAAGTACTGCAAA-TGAATTGTTTAGTT
129 TAAATACTGCAAATTGAAGTGTTTAGTT
109350144 GCTAAAATTT
Statistics
Matches: 604, Mismatches: 74, Indels: 50
0.83 0.10 0.07
Matches are distributed among these distances:
181 9 0.01
182 219 0.36
183 364 0.60
184 12 0.02
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (183 bp):
AAATTGAGATGTATAAATGCTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGATGTTAAAGT
GCTGCAAATTGAAGTGTTAAATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTA
AATACTGCAAATTGAAGTGTTTAGTTACTGCAAATTGAGATGCTTTATCGCTG
Found at i:109349836 original size:205 final size:204
Alignment explanation
Indices: 109349271--109349798 Score: 903
Period size: 205 Copynumber: 2.6 Consensus size: 204
109349261 ATTGAAGTGT
* *
109349271 TTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTAAATGCTGTAAATTGAAT
1 TTAAATGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTAAATGCTGTAAATTGAAG
*
109349336 TATTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAATT
66 TGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAATT
109349401 GAAGTGTTTAGTTGCTGGAAATTGAGATGCTTTATCGCTGTAATTGAGGTGTATAAATGTAGTTA
131 GAAGTGTTTAGTTGCTGGAAATTGAGATGCTTTATCGCTGTAATTGAGGTGTATAAATGTAGTTA
*
109349466 ATTGAGATG
196 ATTAAGATG
*
109349475 TTAAAGTGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTAAATGTTGTAAATTGAA
1 TTAAA-TGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTAAATGCTGTAAATTGAA
109349540 GTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAAT
65 GTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAAT
* *
109349605 TGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTT
130 TGAAGTGTTTAGTTGCTGGAAATTGAGATGCTTTATCGCTGTAATTGAGGTGTATAAATGTAGTT
109349670 AATTAAGATG
195 AATTAAGATG
109349680 TTAAATTGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGA
1 TTAAA-TGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTG-TTAAATGCTGTAAATTGA
* ** * ** *
109349745 AGTGTTTAAATGTTGTAAATTGAAGTATTTAAGTACTGCAAATTGAAGTGTTTA
64 AGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGTAAATTGAAGTGTTTA
109349799 GTTGCTGGAA
Statistics
Matches: 306, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
204 5 0.02
205 237 0.77
206 64 0.21
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.38
Consensus pattern (204 bp):
TTAAATGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTAAATGCTGTAAATTGAAG
TGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAATT
GAAGTGTTTAGTTGCTGGAAATTGAGATGCTTTATCGCTGTAATTGAGGTGTATAAATGTAGTTA
ATTAAGATG
Found at i:109350118 original size:23 final size:23
Alignment explanation
Indices: 109349259--109350119 Score: 644
Period size: 23 Copynumber: 37.7 Consensus size: 23
109349249 AAAGTGCAGC
109349259 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
109349282 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
109349305 AAATTGAAGTG-TTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
* *
109349327 AAATTGAATTATTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
* *
109349350 AAATTGAAGTGCTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
* * *
109349373 AAATTGAAGTGTTTAAGTACTGC
1 AAATTGAAGTGTTTAAATGCTGT
** *
109349396 AAATTGAAGTGTTTAGTTGCTGG
1 AAATTGAAGTGTTTAAATGCTGT
109349419 AAATTG-AGATGCTTT--ATCGCTGT
1 AAATTGAAG-TG-TTTAAAT-GCTGT
* *
109349442 -AATTGAGGTGTATAAATG-TAGT
1 AAATTGAAGTGTTTAAATGCT-GT
* *
109349464 TAATTG-AGATG-TTAAAGTGCTGC
1 AAATTGAAG-TGTTTAAA-TGCTGT
*
109349487 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
*
109349510 AAATTGAAGTG-TTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
109349532 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
* *
109349555 AAATTGAAGTGCTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
* * *
109349578 AAATTGAAGTGTTTAAGTACTGC
1 AAATTGAAGTGTTTAAATGCTGT
** *
109349601 AAATTGAAGTGTTTAGTTGCTGG
1 AAATTGAAGTGTTTAAATGCTGT
*
109349624 AAATTG-AGATGTTT-TATCGCTGT
1 AAATTGAAG-TGTTTAAAT-GCTGT
* * *
109349647 -AATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
* *
109349669 TAATT-AAGATG-TTAAATTGCTGC
1 AAATTGAAG-TGTTTAAA-TGCTGT
*
109349692 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
109349715 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
109349738 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
* * * *
109349761 AAATTGAAGTATTTAAGTACTGC
1 AAATTGAAGTGTTTAAATGCTGT
** *
109349784 AAATTGAAGTGTTTAGTTGCTGG
1 AAATTGAAGTGTTTAAATGCTGT
*
109349807 AAATTG-AGATGTTT-TATCGCTGT
1 AAATTGAAG-TGTTTAAAT-GCTGT
* * **
109349830 -AATTGAGGTGTATAAATATTGT
1 AAATTGAAGTGTTTAAATGCTGT
* *
109349852 TAATTG-AGATG-TTAAAGTGCTGC
1 AAATTGAAG-TGTTTAAA-TGCTGT
* * *
109349875 ACATTGAAGTGTTTGAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
* *
109349898 AAATTGAAGTGTTTAAATGTTTT
1 AAATTGAAGTGTTTAAATGCTGT
* * * **
109349921 CAATTGAAGTGTTTAAGTACTAC
1 AAATTGAAGTGTTTAAATGCTGT
**
109349944 AAATTGAAGTGTTTAGTTGCTAG-
1 AAATTGAAGTGTTTAAATGCT-GT
* *
109349967 AAATTG-AGATGTTTTAACGCTGT
1 AAATTGAAG-TGTTTAAATGCTGT
* * * *
109349990 -AATTGAGGAGTATAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
* * **
109350012 TAATTG-AGAT-ATTAAAGTGCTAC
1 AAATTGAAG-TGTTTAAA-TGCTGT
* * *
109350035 AAATTGAAATGTTTAATTGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
109350058 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
* *
109350081 AAATTGAATTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
109350104 AAATTGAAGTTTTTAA
1 AAATTGAAGTGTTTAA
109350120 GTACTGCAAA
Statistics
Matches: 665, Mismatches: 129, Indels: 88
0.75 0.15 0.10
Matches are distributed among these distances:
21 3 0.00
22 120 0.18
23 512 0.77
24 30 0.05
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (23 bp):
AAATTGAAGTGTTTAAATGCTGT
Found at i:109350879 original size:86 final size:85
Alignment explanation
Indices: 109350702--109350915 Score: 243
Period size: 86 Copynumber: 2.5 Consensus size: 85
109350692 AAAAATGACT
* * * ** * **
109350702 TTTAGTGGCGTTTTTGGA-AAAGTGTCGCTAAAAGTCAAATTCTTTAGCGTCGTTTTTGGAAAAG
1 TTTAGCGGCGTTTGTGGAGAAAGCGTCGCTAAAAGTCATGTTCTTTAGCGGCGTTTCGGGAAAAG
109350766 CAACATTAAAAGTCAAATTC
66 CAACATTAAAAGTCAAATTC
*
109350786 TTTAGCGGCGTTTGTGGAGAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGCGGGAAAA
1 TTTAGCGGCGTTTGTGGAGAAAGCGTCGCTAAAAGTCATGTTCTTTAGCGGCGTTT-CGGGAAAA
**** * **
109350851 GCGTTGTTAAAGGTCATGTTC
65 GCAACATTAAAAGTCAAATTC
*
109350872 TTTAGCGGCGTTTGTGG-GAAAAGCGCCGCTAAAAGTCATGTTCT
1 TTTAGCGGCGTTTGTGGAG-AAAGCGTCGCTAAAAGTCATGTTCT
109350916 ATAACGACGT
Statistics
Matches: 109, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
84 16 0.15
85 33 0.30
86 60 0.55
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (85 bp):
TTTAGCGGCGTTTGTGGAGAAAGCGTCGCTAAAAGTCATGTTCTTTAGCGGCGTTTCGGGAAAAG
CAACATTAAAAGTCAAATTC
Found at i:109350927 original size:43 final size:43
Alignment explanation
Indices: 109350702--109350915 Score: 218
Period size: 43 Copynumber: 5.0 Consensus size: 43
109350692 AAAAATGACT
* * * * **
109350702 TTTAGTGGCGTTT-TTGGAAAAGTGTCGCTAAAAGTCAAATTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGTTC
* * ** ** * **
109350744 TTTAGCGTCGTTT-TTGGAAAAGCAACATTAAAAGTCAAATTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGTTC
109350786 TTTAGCGGCGTTTGT-GGAGAAAGCGTCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGGA-AAAGCGTCGCTAAAGGTCATGTTC
* * *
109350829 TTTAGCGGCGTTTGCGGGAAAAGCGTTGTTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGTTC
* *
109350872 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGTTC
109350915 T
1 T
109350916 ATAACGACGT
Statistics
Matches: 146, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
42 50 0.34
43 93 0.64
44 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGTTC
Found at i:109355306 original size:22 final size:22
Alignment explanation
Indices: 109355278--109355323 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
109355268 AAGCTAGTAG
109355278 CATGGGCATGTACCTTGGACCA
1 CATGGGCATGTACCTTGGACCA
* *
109355300 CATGGGCGTGTCCCTTGGACCA
1 CATGGGCATGTACCTTGGACCA
109355322 CA
1 CA
109355324 CGGGTGTGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.30, G:0.28, T:0.22
Consensus pattern (22 bp):
CATGGGCATGTACCTTGGACCA
Found at i:109358493 original size:38 final size:40
Alignment explanation
Indices: 109358396--109358584 Score: 138
Period size: 40 Copynumber: 4.8 Consensus size: 40
109358386 CGAATGATGT
* * * * * *
109358396 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTAATAAAC
* *
109358436 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA-
1 CCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTAATAAAC
* * *
109358475 TCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTAATAAAC
* ***
109358513 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTAATA-AAC
** * *
109358553 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
109358585 CGTTATATCC
Statistics
Matches: 120, Mismatches: 22, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
37 13 0.11
38 19 0.16
39 19 0.16
40 60 0.50
41 9 0.08
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTAATAAAC
Found at i:109358539 original size:77 final size:79
Alignment explanation
Indices: 109358397--109358544 Score: 203
Period size: 77 Copynumber: 1.9 Consensus size: 79
109358387 GAATGATGTC
* * * *
109358397 CGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTCGT
1 CGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCGT
109358462 GCGAGTTAATAAAT
66 GCGAGTTAATAAAT
* **
109358476 CGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTCG
1 CGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTCG
109358538 TGCGAGT
65 TGCGAGT
109358545 CGCTATAACC
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
76 1 0.02
77 36 0.59
78 15 0.25
79 9 0.15
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (79 bp):
CGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCGT
GCGAGTTAATAAAT
Done.