Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 108 of 290
Found at i:33530649 original size:26 final size:27
Alignment explanation
Indices: 33530617--33530680 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
33530607 AGCGTAGCTG
* * *
33530617 CCAGTAACAGTAAGTGTGGC-AAGCCA
1 CCAGTAACAATAAATGTGACAAAGCCA
*
33530643 CCAGTAACAATAAATGTGACAAAGTCA
1 CCAGTAACAATAAATGTGACAAAGCCA
33530670 CCAGT-ACAATA
1 CCAGTAACAATA
33530681 CTTCCTCCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 23 0.70
27 10 0.30
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (27 bp):
CCAGTAACAATAAATGTGACAAAGCCA
Found at i:33538178 original size:33 final size:33
Alignment explanation
Indices: 33538136--33538216 Score: 117
Period size: 33 Copynumber: 2.5 Consensus size: 33
33538126 GTGAATAACA
*
33538136 CAGTATCAGTACAGTCTGGCCCAAGGCCTTATT
1 CAGTATCAGTACAGTCTGGCCCAAAGCCTTATT
* *
33538169 CAGTATCAGTACAGTTTGGGCCAAAGCCTTATT
1 CAGTATCAGTACAGTCTGGCCCAAAGCCTTATT
* *
33538202 CAGTACCGGTACAGT
1 CAGTATCAGTACAGT
33538217 GCAAAATGCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (33 bp):
CAGTATCAGTACAGTCTGGCCCAAAGCCTTATT
Found at i:33538402 original size:26 final size:27
Alignment explanation
Indices: 33538359--33538422 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
33538349 AGCGTAGCTT
* * *
33538359 CCAGTAACAGTAAGTGTGGC-AAGCCA
1 CCAGTAACAATAAATGTGACAAAGCCA
*
33538385 CCAGTAACAATAAATGTGACAAAGTCA
1 CCAGTAACAATAAATGTGACAAAGCCA
33538412 CCAGT-ACAATA
1 CCAGTAACAATA
33538423 CTTCCTCCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 23 0.70
27 10 0.30
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (27 bp):
CCAGTAACAATAAATGTGACAAAGCCA
Found at i:33543668 original size:24 final size:22
Alignment explanation
Indices: 33543638--33543686 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 22
33543628 TGGTTAGAAG
33543638 TTTAAGT-TATTGATTTTGATATGT
1 TTTAAGTGTA-TG-TTTTGAT-TGT
33543662 TTTAAGTGTATGTTTTGATTGT
1 TTTAAGTGTATGTTTTGATTGT
33543684 TTT
1 TTT
33543687 GGCCATGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.25
23 7 0.29
24 9 0.38
25 2 0.08
ACGTcount: A:0.20, C:0.00, G:0.18, T:0.61
Consensus pattern (22 bp):
TTTAAGTGTATGTTTTGATTGT
Found at i:33544232 original size:22 final size:22
Alignment explanation
Indices: 33544207--33544252 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
33544197 TTATTATATG
33544207 AATTGATATATGT-TTCTAAATT
1 AATTGA-ATATGTGTTCTAAATT
*
33544229 AATTGAATATTTGTTCTAAATT
1 AATTGAATATGTGTTCTAAATT
33544251 AA
1 AA
33544253 GATAAATTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (22 bp):
AATTGAATATGTGTTCTAAATT
Found at i:33544282 original size:27 final size:27
Alignment explanation
Indices: 33544250--33544306 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
33544240 TGTTCTAAAT
33544250 TAAGATAAATTGTTCTATTTGGTTCTG
1 TAAGATAAATTGTTCTATTTGGTTCTG
33544277 TAAGATAAATTGTTCTATTTGGTTCTG
1 TAAGATAAATTGTTCTATTTGGTTCTG
33544304 TAA
1 TAA
33544307 CACTCTGATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.07, G:0.18, T:0.47
Consensus pattern (27 bp):
TAAGATAAATTGTTCTATTTGGTTCTG
Found at i:33545374 original size:12 final size:14
Alignment explanation
Indices: 33545344--33545384 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
33545334 TAAAAAATGT
33545344 TAAAGAAATAGATA
1 TAAAGAAATAGATA
33545358 TAAAG-AATAGA-A
1 TAAAGAAATAGATA
33545370 TAAAGGAAAATAGAT
1 TAAA-G-AAATAGAT
33545385 GCTCATGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 5 0.22
13 7 0.30
14 5 0.22
15 6 0.26
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (14 bp):
TAAAGAAATAGATA
Found at i:33547182 original size:19 final size:21
Alignment explanation
Indices: 33547158--33547196 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
33547148 TTGTTAGCTA
33547158 ATATAT-GTTAAA-TGTTGAT
1 ATATATAGTTAAATTGTTGAT
*
33547177 ATATATATTTAAATTGTTGA
1 ATATATAGTTAAATTGTTGA
33547197 ATTATAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 5 0.29
21 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (21 bp):
ATATATAGTTAAATTGTTGAT
Found at i:33553725 original size:18 final size:18
Alignment explanation
Indices: 33553698--33553741 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
33553688 TCAAAGGCTA
*
33553698 CAACATCCCCCAGGCTTT
1 CAACAACCCCCAGGCTTT
33553716 CAACAACCCCCAGGCTTT
1 CAACAACCCCCAGGCTTT
*
33553734 AAACAACC
1 CAACAACC
33553742 ATTTTACCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.32, C:0.43, G:0.09, T:0.16
Consensus pattern (18 bp):
CAACAACCCCCAGGCTTT
Found at i:33555607 original size:18 final size:20
Alignment explanation
Indices: 33555586--33555628 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
33555576 GCACACAGCC
*
33555586 GCGTGTTCG-TAC-ACACGG
1 GCGTGTGCGATACTACACGG
*
33555604 GCGTGTGGGATACTACACGG
1 GCGTGTGCGATACTACACGG
33555624 GCGTG
1 GCGTG
33555629 GGAGAAGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 3 0.14
20 11 0.52
ACGTcount: A:0.16, C:0.23, G:0.40, T:0.21
Consensus pattern (20 bp):
GCGTGTGCGATACTACACGG
Found at i:33556103 original size:30 final size:30
Alignment explanation
Indices: 33556046--33556103 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
33556036 TAGGCAGTTT
* * *
33556046 CACACGGGTAATCCACATGCTCGTGTGTGA
1 CACACGGGTAATCCACACGCCCATGTGTGA
33556076 CACACGGGTAGA-CCACACGCCCATGTGT
1 CACACGGGTA-ATCCACACGCCCATGTGT
33556104 CATGGCCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.19
Consensus pattern (30 bp):
CACACGGGTAATCCACACGCCCATGTGTGA
Found at i:33563577 original size:5 final size:5
Alignment explanation
Indices: 33563567--33563607 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
33563557 ATTTTTCTTC
*
33563567 CTTTT CTTTT CTTTT C-TTT -TTAT CTTTT CTTTT C-TTT CTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTT
33563608 CTCTCCCCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
4 9 0.29
5 22 0.71
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (5 bp):
CTTTT
Found at i:33563637 original size:26 final size:26
Alignment explanation
Indices: 33563590--33563647 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
33563580 TTCTTTTTAT
* * *
33563590 CTTTTCTTTTCTTTCTTTCTCTC-CC
1 CTTTTCTTTCCTTTCCTCCTCTCTCC
*
33563615 CTTTTCTTTCCCTTTCCTCCTCTCTTC
1 CTTTTCTTT-CCTTTCCTCCTCTCTCC
33563642 CTTTTC
1 CTTTTC
33563648 ACCCCTCTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 9 0.33
26 11 0.41
27 7 0.26
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (26 bp):
CTTTTCTTTCCTTTCCTCCTCTCTCC
Found at i:33567047 original size:9 final size:9
Alignment explanation
Indices: 33567035--33567071 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
33567025 TATATTTTAA
33567035 TATTCGAAT
1 TATTCGAAT
*
33567044 TATTTGAAT
1 TATTCGAAT
*
33567053 TATTCGAGT
1 TATTCGAAT
33567062 TATTCGAAT
1 TATTCGAAT
33567071 T
1 T
33567072 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:33571905 original size:21 final size:21
Alignment explanation
Indices: 33571881--33571924 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
33571871 TCATTCATGG
33571881 GATTGATGGAAATTCGTTTTA
1 GATTGATGGAAATTCGTTTTA
33571902 GATTGATGGAAATTCGTTTTA
1 GATTGATGGAAATTCGTTTTA
33571923 GA
1 GA
33571925 AACATGTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.41
Consensus pattern (21 bp):
GATTGATGGAAATTCGTTTTA
Found at i:33581843 original size:90 final size:90
Alignment explanation
Indices: 33581684--33581851 Score: 257
Period size: 90 Copynumber: 1.9 Consensus size: 90
33581674 CAAAGTGGAC
* *
33581684 GCCTTTGTGGCCATCTAATTATATGGACACCTCTATGGCTATCTTCTATATGAGTTTGGATGCCC
1 GCCTTTGTGGCCATCTAACTATATGGACACCTCTATGGCTATCTTCTATATGAGTTTGGACGCCC
33581749 TTGCGGCTATCTAATGTGAGTAGGT
66 TTGCGGCTATCTAATGTGAGTAGGT
* * * *
33581774 GCCTTTGTGGCTATCTAACTATATGGACGA-CTCTATGGCTATCTTGTATATGTGTTTGGACGCT
1 GCCTTTGTGGCCATCTAACTATATGGAC-ACCTCTATGGCTATCTTCTATATGAGTTTGGACGCC
*
33581838 TTTGCGGCTATCTA
65 CTTGCGGCTATCTA
33581852 TGTCAAAGGA
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
90 69 0.99
91 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (90 bp):
GCCTTTGTGGCCATCTAACTATATGGACACCTCTATGGCTATCTTCTATATGAGTTTGGACGCCC
TTGCGGCTATCTAATGTGAGTAGGT
Found at i:33581873 original size:90 final size:90
Alignment explanation
Indices: 33581686--33581880 Score: 234
Period size: 90 Copynumber: 2.2 Consensus size: 90
33581676 AAGTGGACGC
* * *
33581686 CTTTGTGGCCATCTAATTATATGGACACCTCTATGGCTATCTTCTATATGAGTTTGGATGCCCTT
1 CTTTGTGGCTATCTAACTATATGGACACCTCTATGGCTATCTTCTATATGAGTTTGGACGCCCTT
* * * *
33581751 GCGGCTATCTAATGTGAGTAGGTGC
66 GCGGCTATCTAATGTCAGAAGGAGA
* * **
33581776 CTTTGTGGCTATCTAACTATATGGACGA-CTCTATGGCTATCTTGTATATGTGTTTGGACGCTTT
1 CTTTGTGGCTATCTAACTATATGGAC-ACCTCTATGGCTATCTTCTATATGAGTTTGGACGCCCT
33581840 TGCGGCTATCT-ATGTCA-AAGGAAGA
65 TGCGGCTATCTAATGTCAGAAGG-AGA
*
33581865 CTTATGTGGTTATCTA
1 CTT-TGTGGCTATCTA
33581881 TATCAAGGGA
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
88 3 0.03
89 9 0.10
90 77 0.86
91 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (90 bp):
CTTTGTGGCTATCTAACTATATGGACACCTCTATGGCTATCTTCTATATGAGTTTGGACGCCCTT
GCGGCTATCTAATGTCAGAAGGAGA
Found at i:33585150 original size:26 final size:26
Alignment explanation
Indices: 33585080--33585144 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
33585070 TTATTTTTTC
* *
33585080 AAAAATAATAATAA-ATAAAAAGAAAT
1 AAAAATATTAA-AATATTAAAAGAAAT
* *
33585106 AAATATATTAAAATATTAAAATAAAT
1 AAAAATATTAAAATATTAAAAGAAAT
33585132 AAAAATATTAAAA
1 AAAAATATTAAAA
33585145 CTTTAACTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
25 2 0.06
26 31 0.94
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (26 bp):
AAAAATATTAAAATATTAAAAGAAAT
Found at i:33590357 original size:13 final size:13
Alignment explanation
Indices: 33590339--33590364 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33590329 AATAACAAAT
33590339 TTAAAAAAAGAGA
1 TTAAAAAAAGAGA
33590352 TTAAAAAAAGAGA
1 TTAAAAAAAGAGA
33590365 AAGAAAAGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
TTAAAAAAAGAGA
Found at i:33592625 original size:19 final size:18
Alignment explanation
Indices: 33592596--33592635 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
33592586 CAAAATGTAC
33592596 AATATAATTAAATAATAT
1 AATATAATTAAATAATAT
*
33592614 AATATAAATTAAATAATTT
1 AATAT-AATTAAATAATAT
33592633 AAT
1 AAT
33592636 TAACTGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATATAATTAAATAATAT
Found at i:33596445 original size:17 final size:19
Alignment explanation
Indices: 33596413--33596459 Score: 71
Period size: 17 Copynumber: 2.6 Consensus size: 19
33596403 GAAGAGGCCT
33596413 AAACTCTATCATCCTCTCA
1 AAACTCTATCATCCTCTCA
33596432 AAACTC-AT-ATCCTCTCA
1 AAACTCTATCATCCTCTCA
*
33596449 AAACCCTATCA
1 AAACTCTATCA
33596460 AATTCTTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 14 0.56
18 4 0.16
19 7 0.28
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.28
Consensus pattern (19 bp):
AAACTCTATCATCCTCTCA
Found at i:33598008 original size:29 final size:29
Alignment explanation
Indices: 33597976--33598033 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
33597966 ACATTACCCA
*
33597976 CATTTAAAAAGATGGATATGCATGCATGC
1 CATTTAAAAAGATGGATATCCATGCATGC
*
33598005 CATTTAAAAATATGGATATCCATGCATGC
1 CATTTAAAAAGATGGATATCCATGCATGC
33598034 TTAACAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (29 bp):
CATTTAAAAAGATGGATATCCATGCATGC
Found at i:33609324 original size:55 final size:54
Alignment explanation
Indices: 33609244--33609387 Score: 171
Period size: 55 Copynumber: 2.6 Consensus size: 54
33609234 TGCGACATGG
* * * * * *
33609244 CCGTGGGCGAACCTGTTAAAACAACACGGGCGTTCGACATGCCCGTGTCTAGAAC
1 CCGTGGTCGAACCT-ATCAAACAACACGGGCGTGCAACAGGCCCGTGTCTAGAAC
* *
33609299 CCGTGGTTGAACCTATCAAATCAACACGGGCGTGCAACAGGCCCGTGTCTAGCAC
1 CCGTGGTCGAACCTATCAAA-CAACACGGGCGTGCAACAGGCCCGTGTCTAGAAC
* *
33609354 CCGTGGTCGAACCTGTTAAACTAACACGGGCGTG
1 CCGTGGTCGAACCTATCAAAC-AACACGGGCGTG
33609388 AGAGAAGCAA
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 5 0.07
55 71 0.93
ACGTcount: A:0.25, C:0.29, G:0.27, T:0.19
Consensus pattern (54 bp):
CCGTGGTCGAACCTATCAAACAACACGGGCGTGCAACAGGCCCGTGTCTAGAAC
Found at i:33612482 original size:20 final size:21
Alignment explanation
Indices: 33612449--33612488 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
33612439 ATAGTTGCTC
33612449 AGTTATGTCTTGTT-TTTAAT
1 AGTTATGTCTTGTTATTTAAT
33612469 AGTTA-GTCTATGTTATTTAA
1 AGTTATGTCT-TGTTATTTAA
33612489 CTTGTTCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 9 0.50
21 5 0.28
ACGTcount: A:0.25, C:0.05, G:0.15, T:0.55
Consensus pattern (21 bp):
AGTTATGTCTTGTTATTTAAT
Found at i:33615405 original size:41 final size:41
Alignment explanation
Indices: 33615359--33615502 Score: 182
Period size: 41 Copynumber: 3.5 Consensus size: 41
33615349 TAGAGTGTTA
*
33615359 CATGATATGAATATTTACTTAAGCTTTGCCTTCAAGGTGAG
1 CATGATATGAATATTTACTTAAGCTTTGCCTTCAAGGCGAG
* * **
33615400 TATGATATGGATATTTACTTAAGCTTCACCTTCAAGGCGAG
1 CATGATATGAATATTTACTTAAGCTTTGCCTTCAAGGCGAG
* * * *
33615441 CATGATAT-AGGTATTTACTTAAGCTTTGTCTTCAAGGCAAA
1 CATGATATGA-ATATTTACTTAAGCTTTGCCTTCAAGGCGAG
*
33615482 CATGATATGGATATTTACTTA
1 CATGATATGAATATTTACTTA
33615503 GATTTCAAGG
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 86 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.37
Consensus pattern (41 bp):
CATGATATGAATATTTACTTAAGCTTTGCCTTCAAGGCGAG
Found at i:33615937 original size:21 final size:21
Alignment explanation
Indices: 33615889--33615938 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
33615879 TCCAAAATCT
33615889 TATAAATATATATTCAAAAAA
1 TATAAATATATATTCAAAAAA
* * *
33615910 TAAAAATTTATATT-AAATATA
1 TATAAATATATATTCAAA-AAA
33615931 TATAAATA
1 TATAAATA
33615939 CTAAATATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
TATAAATATATATTCAAAAAA
Found at i:33616861 original size:74 final size:73
Alignment explanation
Indices: 33616773--33616911 Score: 224
Period size: 74 Copynumber: 1.9 Consensus size: 73
33616763 TTCATTAAAA
* *
33616773 TTGGTAAATTTTTAGTTTGATTTGATAAACTAATATAAATTAGTATCCAAATATTAATTTGGTAA
1 TTGGTAAATTTTTAGTTTAATTTGATAAACTAATATAAAGTAGTATCCAAATATTAATTTGGTAA
33616838 AAATATAT
66 AAATATAT
* * *
33616846 TTGGTAATATTTTTAGTTTAATTTGGTAAACTAATATAAAGTAGTATCTATATATTAATTTGGTA
1 TTGGTAA-ATTTTTAGTTTAATTTGATAAACTAATATAAAGTAGTATCCAAATATTAATTTGGTA
33616911 A
65 A
33616912 GAAAATAATG
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
73 7 0.12
74 53 0.88
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.45
Consensus pattern (73 bp):
TTGGTAAATTTTTAGTTTAATTTGATAAACTAATATAAAGTAGTATCCAAATATTAATTTGGTAA
AAATATAT
Found at i:33616904 original size:37 final size:37
Alignment explanation
Indices: 33616792--33616911 Score: 111
Period size: 37 Copynumber: 3.2 Consensus size: 37
33616782 TTTTAGTTTG
* * * *
33616792 ATTTGATAAACTAATATAAATTAGTATCCAAATATTA
1 ATTTGGTAAACTAATATAAAGTAGTATCTATATATTA
** * * *
33616829 ATTTGGTAAA--AATATATTTGGTAATATTTTTAGT-TTA
1 ATTTGGTAAACTAATATA--AAGTAGTATCTATA-TATTA
33616866 ATTTGGTAAACTAATATAAAGTAGTATCTATATATTA
1 ATTTGGTAAACTAATATAAAGTAGTATCTATATATTA
33616903 ATTTGGTAA
1 ATTTGGTAA
33616912 GAAAATAATG
Statistics
Matches: 63, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
35 6 0.10
36 1 0.02
37 49 0.78
38 1 0.02
39 6 0.10
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (37 bp):
ATTTGGTAAACTAATATAAAGTAGTATCTATATATTA
Found at i:33621623 original size:42 final size:42
Alignment explanation
Indices: 33621564--33621649 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
33621554 AAAGACATCC
33621564 ATTTAATAACATAGCACGTAATCATACAATGGATATCAATAT
1 ATTTAATAACATAGCACGTAATCATACAATGGATATCAATAT
*
33621606 ATTTAATAACATAGCACGTAATCATATAATGGATATCAATAT
1 ATTTAATAACATAGCACGTAATCATACAATGGATATCAATAT
33621648 AT
1 AT
33621650 GTGATGTGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (42 bp):
ATTTAATAACATAGCACGTAATCATACAATGGATATCAATAT
Found at i:33625929 original size:34 final size:34
Alignment explanation
Indices: 33625886--33625955 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
33625876 ATATGGCTGC
*
33625886 TACTGATACTATGATGGGCTAAGGCCCTAATGCA
1 TACTGATACTATGAAGGGCTAAGGCCCTAATGCA
* *
33625920 TACTGATACTGTGAAGGGCTAAGGCCCTACTGCA
1 TACTGATACTATGAAGGGCTAAGGCCCTAATGCA
33625954 TA
1 TA
33625956 TTTCATACTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (34 bp):
TACTGATACTATGAAGGGCTAAGGCCCTAATGCA
Found at i:33632344 original size:20 final size:20
Alignment explanation
Indices: 33632316--33632374 Score: 50
Period size: 20 Copynumber: 3.0 Consensus size: 20
33632306 CATAGGGTTG
*
33632316 TTAACTTAATTAATTTAAGA
1 TTAATTTAATTAATTTAAGA
* * *
33632336 TTTATTTAACTAAATTT-AGG
1 TTAATTTAA-TTAATTTAAGA
*
33632356 TTAATTAAATTAA-TTAAGA
1 TTAATTTAATTAATTTAAGA
33632375 AAATAATTTC
Statistics
Matches: 29, Mismatches: 8, Indels: 5
0.69 0.19 0.12
Matches are distributed among these distances:
18 2 0.07
19 5 0.17
20 16 0.55
21 6 0.21
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (20 bp):
TTAATTTAATTAATTTAAGA
Found at i:33633522 original size:15 final size:14
Alignment explanation
Indices: 33633496--33633526 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
33633486 TCCTCTACTT
33633496 TTTTTCTTTCTTTC
1 TTTTTCTTTCTTTC
33633510 TTTTTCTTCTCTTTC
1 TTTTTCTT-TCTTTC
33633525 TT
1 TT
33633527 GATCTTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTCTTTCTTTC
Found at i:33635449 original size:18 final size:17
Alignment explanation
Indices: 33635426--33635461 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
33635416 GTTGTGTTAT
33635426 ATGATAAATTAATGATTG
1 ATGATAAATTAA-GATTG
33635444 ATGATAAATTAAGATTG
1 ATGATAAATTAAGATTG
33635461 A
1 A
33635462 AAGAATGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (17 bp):
ATGATAAATTAAGATTG
Found at i:33639620 original size:131 final size:130
Alignment explanation
Indices: 33639372--33639704 Score: 424
Period size: 131 Copynumber: 2.6 Consensus size: 130
33639362 AAAAAACCGA
* * * * *
33639372 AACCCAGCAC-AGTAGGGCACGATTCCTCGAATTTCTAGACATT-GAACATTGCC-TTATTTT-A
1 AACCCAGCACGA-TAGGGCACGATTCCCCGAATTGCCAAAC-TTCGAACATTGCCTTTGTTTTAA
* * * * * * * *
33639433 GA-ATTTAGAGAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAATT
64 AAGATTTTGAAAACATGAGTGAAATTCCAAAAGAAAATTCGATTATTTTGAACAAACGGAAAATT
33639497 GC
129 GC
*
33639499 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACTTCGAACATTACCTTTGTTTTAAAA
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACTTCGAACATTGCCTTTGTTTTAAAA
33639564 GATTTTGAAACACATGAGTGAAATTCCAAAAGAAAATTCGATTATTTTGAACAAACGGAAAATTG
66 GATTTTGAAA-ACATGAGTGAAATTCCAAAAGAAAATTCGATTATTTTGAACAAACGGAAAATTG
33639629 C
130 C
* * * *
33639630 AACCCAGCACGATAGGGCATGATTCTCCAAATTGCCAAACATCGAACATTGCCTTTGTTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACTTCGAACATTGCCTTTGTTTTAAA-
*
33639695 AGTTTTTGAA
65 AGATTTTGAA
33639705 TGAATAATTA
Statistics
Matches: 179, Mismatches: 20, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
126 2 0.01
127 43 0.24
128 7 0.04
129 2 0.01
130 7 0.04
131 109 0.61
132 9 0.05
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (130 bp):
AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACTTCGAACATTGCCTTTGTTTTAAAA
GATTTTGAAAACATGAGTGAAATTCCAAAAGAAAATTCGATTATTTTGAACAAACGGAAAATTGC
Found at i:33642496 original size:45 final size:43
Alignment explanation
Indices: 33642385--33642505 Score: 152
Period size: 45 Copynumber: 2.7 Consensus size: 43
33642375 TATTTTTATC
* * *
33642385 TTGCTCTACTGCAACTTCAGAGAGATAAGGACTGTAGCTTCAAT
1 TTGCTCCACTGCAACTTCAGGGAGATAA-GACTGTAACTTCAAT
* * *
33642429 CTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTAACTTTAGT
1 TTGCTCCACTGCAACTTCAGGGAGATAAGA-CTG-TAACTTCAAT
*
33642474 TTGCTCCACTGCAACTTTAGGGAGATAAGACT
1 TTGCTCCACTGCAACTTCAGGGAGATAAGACT
33642506 CACAATTTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.03
44 30 0.45
45 35 0.52
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (43 bp):
TTGCTCCACTGCAACTTCAGGGAGATAAGACTGTAACTTCAAT
Found at i:33642815 original size:88 final size:89
Alignment explanation
Indices: 33642475--33642860 Score: 377
Period size: 88 Copynumber: 4.4 Consensus size: 89
33642465 AACTTTAGTT
* * * * **
33642475 TGCTCCACTGCAACTTTAGGGAGATAAGA-CTCACAATTTTTAGCCTGTTACCCTACTGTTTAGG
1 TGCTCCACTGCAACTTCAGGGAGACAAGATCT-ACAATCTTCAGCCTGTTACCCTACTACTTAGG
** ** *
33642539 GGGTTAAGGCTCACCGTCTTCGATT
65 GGGTTAAGGCTTGCTATCTTCGATC
* ** * * * * *
33642564 TGCTCCACTACTGCTT-AAGGAGACAATATCTATAATTTTCAGCCTATTACCCTACTACTTAGGG
1 TGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGG
** * *
33642628 GGTTAAGGCTCACTATTTTCGATT
66 GGTTAAGGCTTGCTATCTTCGATC
* * * ***
33642652 TGCTCCACTGTC-ATTTTAGGGAGACAAGATCTGCAATCTTCAATTTGTTACCCTACTACTTAGG
1 TGCTCCACTG-CAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGG
33642716 GGGTTAAGGCTTGCT-TCTTCGATC
65 GGGTTAAGGCTTGCTATCTTCGATC
* * * * *
33642740 TGTTCCACTGCAACTTCAGGGAGACAAGATCTATAATCTTCGGCCTGTTACCCTACTACTAAGGA
1 TGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGG
*
33642805 GGTTAAGGCTTGCTGTCCTT-GATC
66 GGTTAAGGCTTGCTAT-CTTCGATC
* *
33642829 TGTTCCACTGCAACTTCAGGAAGACAAGATCT
1 TGCTCCACTGCAACTTCAGGGAGACAAGATCT
33642861 GTGAATTCAC
Statistics
Matches: 249, Mismatches: 42, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
87 1 0.00
88 142 0.57
89 103 0.41
90 3 0.01
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (89 bp):
TGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGG
GGTTAAGGCTTGCTATCTTCGATC
Found at i:33642838 original size:177 final size:177
Alignment explanation
Indices: 33642520--33642861 Score: 402
Period size: 177 Copynumber: 1.9 Consensus size: 177
33642510 ATTTTTAGCC
** * **
33642520 TGTTACCCTACTGTTTAGGGGGTTAAGGCTCACCGTCTTCGATTTGCTCCACTACTGCTTAAGGA
1 TGTTACCCTACTACTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACAACTTAAGGA
* * * * *
33642585 GACAATATCTATAATTTTCAGCCTATTACCCTACTACTTAGGGGGTTAAGGCTCACTATTTTCGA
66 GACAAGATCTATAATCTTCAGCCTATTACCCTACTACTAAGGAGGTTAAGGCTCACTATCTTCGA
* * * *
33642650 TTTGCTCCACTGTC-ATTTTAGGGAGACAAGATCTGCAATCTTCAATT
131 TCTGCTCCACTG-CAACTTCAGGAAGACAAGATCTGCAATCTTCAATT
** * * * *
33642697 TGTTACCCTACTACTTAGGGGGTTAAGGCT-TGCTTCTTCGATCTGTTCCACTGCAACTTCAGGG
1 TGTTACCCTACTACTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACAACTT-AAGG
* * ** *
33642761 AGACAAGATCTATAATCTTCGGCCTGTTACCCTACTACTAAGGAGGTTAAGGCTTGCTGTCCTT-
65 AGACAAGATCTATAATCTTCAGCCTATTACCCTACTACTAAGGAGGTTAAGGCTCACTAT-CTTC
*
33642825 GATCTGTTCCACTGCAACTTCAGGAAGACAAGATCTG
129 GATCTGCTCCACTGCAACTTCAGGAAGACAAGATCTG
33642862 TGAATTCACC
Statistics
Matches: 136, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
176 22 0.16
177 112 0.82
178 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (177 bp):
TGTTACCCTACTACTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACAACTTAAGGA
GACAAGATCTATAATCTTCAGCCTATTACCCTACTACTAAGGAGGTTAAGGCTCACTATCTTCGA
TCTGCTCCACTGCAACTTCAGGAAGACAAGATCTGCAATCTTCAATT
Found at i:33654537 original size:131 final size:130
Alignment explanation
Indices: 33654300--33654627 Score: 459
Period size: 131 Copynumber: 2.5 Consensus size: 130
33654290 AAAAAATCGA
* * * * * *
33654300 AACCCAGCAC-AGTAAGGCACGATTCCTCGAATTTCTAGACATTGAACATTGCCTT-ATTTT--A
1 AACCCAGCACGA-TAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCGTTTTAAA
* * * * *
33654361 GAATTTAGAGAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTAAACAAACGGGAAATTG
65 AAATTTTGAAAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTAAACAAACGGAAAATTG
33654426 C
130 C
* *
33654427 AACCCAGCACGATAGGGCACGATTCCCCAAATTTCCAAACATCGAACATTACCTTCGTTTTAAAA
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCGTTTTAAAA
*
33654492 AATTTTGAAAGACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGGAAAATTG
66 AATTTTGAAA-ACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTAAACAAACGGAAAATTG
33654557 C
130 C
* *
33654558 AACCCAGCACGATAGGGCA-AATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAA
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCGTTTTAAAA
33654622 AATTTT
66 AATTTT
33654628 TGAATGAGTA
Statistics
Matches: 178, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
127 46 0.26
128 5 0.03
130 56 0.31
131 71 0.40
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (130 bp):
AACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCGTTTTAAAA
AATTTTGAAAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTAAACAAACGGAAAATTGC
Found at i:33655151 original size:19 final size:19
Alignment explanation
Indices: 33655123--33655220 Score: 137
Period size: 19 Copynumber: 5.2 Consensus size: 19
33655113 AATCCTTAAG
*
33655123 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33655142 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
33655161 GATA--CAATCTTACATAT
1 GATATGCAATCTTAGATAT
*
33655178 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
33655197 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
33655218 GAT
1 GAT
33655221 CTTGTAATCC
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
17 16 0.23
19 45 0.64
21 9 0.13
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:33655166 original size:36 final size:36
Alignment explanation
Indices: 33655126--33655234 Score: 137
Period size: 36 Copynumber: 2.9 Consensus size: 36
33655116 CCTTAAGGAT
*
33655126 ATACAATCTTAGATATGATATGCAATCTTAGATATG
1 ATACAATCTTAGATATGATATGCAATCCTAGATATG
*
33655162 ATACAATCTTACATATGATATGCAATCCTAGATATG
1 ATACAATCTTAGATATGATATGCAATCCTAGATATG
* *
33655198 ATATGCAATCTTGAAGATATGATCTTGTAATCCTAGA
1 ATA--CAATCTT--AGATATGAT-ATGCAATCCTAGA
33655235 GATTTAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
36 37 0.59
38 7 0.11
40 8 0.13
41 11 0.17
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (36 bp):
ATACAATCTTAGATATGATATGCAATCCTAGATATG
Found at i:33661790 original size:88 final size:88
Alignment explanation
Indices: 33661598--33662839 Score: 1032
Period size: 88 Copynumber: 14.1 Consensus size: 88
33661588 CAGAGAAACA
* * * * * *
33661598 AGATTTGGCATCCCTATGTTTATAGGGAACAGATTGAAGATAGCAGATCTGACA-CTCCTATGCT
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATTGAAGATAGCAGATTTGGCATC-CCTGTGTT
* * **
33661662 TACAGCGAAACAGATCGAAGATTTC
65 TATAG-GGAACAGATCGAAGATAGC
33661687 AG--CATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATTTGGCATCCCTGTGT
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TTGAAGATAGCAGATTTGGCATCCCTGTGT
*
33661749 TTATAGGGAACAGATCAAAGATAGC
64 TTATAGGGAACAGATCGAAGATAGC
** * * * * **
33661774 AGATCTAACA-CTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAGGA--TGGCATCCCTGTG
1 AGATCTGGCATC-CCTGTGTTTATAGGGAA-CAGATTGAAGATAGCA-GATTTGGCATCCCTGTG
*
33661836 TTTATAGGGAACA-AGTTGAAGATAGC
63 TTTATAGGGAACAGA-TCGAAGATAGC
* * * * *
33661862 AGAAT-TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACA-CTCCTATGC
1 AG-ATCTGGCATCCCTGTGTTTATAGGGAACAGATTGAAGATAGCAGATTTGGCATC-CCTGTGT
* ** * **
33661925 TTACAACGAAGTAGATCGAAGATTTC
64 TTATAGGGAA-CAGATCGAAGATAGC
* *
33661951 AG--CATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATTTGGCATCCCTATAT
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TTGAAGATAGCAGATTTGGCATCCCTGTGT
33662013 TTATAGGGAACAGATCGAAGATAGC
64 TTATAGGGAACAGATCGAAGATAGC
* * * * * **
33662038 AGATCTGACA-CTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAGCA--TGGCATCCCTGTG
1 AGATCTGGCATC-CCTGTGTTTATAGGGAA-CAGATTGAAGATAGCAG-ATTTGGCATCCCTGTG
*
33662100 TTTATAGGGAACA-AGTTGAAGATAGC
63 TTTATAGGGAACAGA-TCGAAGATAGC
* * * * * *
33662126 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACA-CTCCTGTGCT
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATTGAAGATAGCAGATTTGGCATC-CCTGTGTT
* * **
33662190 TACAGTGAAGCAGATCGAAGATTTC
65 TATAGGGAA-CAGATCGAAGATAGC
* * *
33662215 AG--CATAGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATTTGACATCCTTGTGT
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TTGAAGATAGCAGATTTGGCATCCCTGTGT
33662277 TTATA-GGAACAGATCGAAGATAGC
64 TTATAGGGAACAGATCGAAGATAGC
* * * * **
33662301 AGATCTGACA-CTCCTGTGCTTACAGCGAAGCAGATTGAAGATTTCAGCA--TGGCATCCCTGTG
1 AGATCTGGCATC-CCTGTGTTTATAGGGAA-CAGATTGAAGATAGCAG-ATTTGGCATCCCTGTG
* *
33662363 TTTATAGGGAACA-AGTTGAAGATAAC
63 TTTATAGGGAACAGA-TCGAAGATAGC
* * * *
33662389 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATTGAAGATAGCAGATCTGACA-CTCCTGTGCT
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATTGAAGATAGCAGATTTGGCATC-CCTGTGTT
* * **
33662453 TACAGCGAAGCAGATCGAAGATTTC
65 TATAGGGAA-CAGATCGAAGATAGC
**
33662478 AG--CATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAATAGA-TTGGCATCCCTGTGT
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TTGAAGATAGCAGATTTGGCATCCCTGTGT
33662539 TTATAGGGAACAGATCGAAGATAGC
64 TTATAGGGAACAGATCGAAGATAGC
* * * * * * **
33662564 AAATCTGACA-CTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAGCA--TGGCATCCCTGTG
1 AGATCTGGCATC-CCTGTGTTTATAGGGAA-CAGATTGAAGATAGCAG-ATTTGGCATCCCTGTG
*
33662626 TTTATAGGGAACA-AGTTGAAGATAGC
63 TTTATAGGGAACAGA-TCGAAGATAGC
* * * ** *
33662652 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTAACA-CTCCTGTGCT
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATTGAAGATAGCAGATTTGGCATC-CCTGTGTT
* **
33662716 TACAGGGAAGCAGATCGAAGATTTC
65 TATAGGGAA-CAGATCGAAGATAGC
* * *
33662741 AG--CATGGCATCCCTCTGTTTATAGGGAACA-AGTTGAAGATAGCAGAATTGGCATCCTTGTGT
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TTGAAGATAGCAGATTTGGCATCCCTGTGT
*
33662803 TTATAGGGAACCGATCGAAGATAGC
64 TTATAGGGAACAGATCGAAGATAGC
33662828 AGATCTGGCATC
1 AGATCTGGCATC
33662840 TCCATTTCGA
Statistics
Matches: 924, Mismatches: 157, Indels: 145
0.75 0.13 0.12
Matches are distributed among these distances:
86 36 0.04
87 191 0.21
88 599 0.65
89 89 0.10
90 9 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (88 bp):
AGATCTGGCATCCCTGTGTTTATAGGGAACAGATTGAAGATAGCAGATTTGGCATCCCTGTGTTT
ATAGGGAACAGATCGAAGATAGC
Found at i:33661835 original size:132 final size:132
Alignment explanation
Indices: 33661598--33662834 Score: 2190
Period size: 132 Copynumber: 9.4 Consensus size: 132
33661588 CAGAGAAACA
* * *
33661598 AGATTTGGCATCCCTATGTTTATAGGGAACAGATTGAAGATAGCAGATCTGACACTCCTATGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
*
33661663 ACAGCGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
33661728 GC
131 GC
* *
33661730 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTAACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
*
33661795 ACAGCGAAGCAGATCGAAGATTTCAGGATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
33661860 GC
131 GC
* *
33661862 AGAATTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTATGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* *
33661927 ACAACGAAGTAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
33661992 GC
131 GC
* *
33661994 AGATTTGGCATCCCTATATTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
33662059 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
33662124 GC
131 GC
*
33662126 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* *
33662191 ACAGTGAAGCAGATCGAAGATTTCAGCATAGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
33662256 GC
131 GC
* *
33662258 AGATTTGACATCCTTGTGTTTATA-GGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
*
33662322 ACAGCGAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
*
33662387 AC
131 GC
*
33662389 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATTGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
33662454 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
**
33662519 AT
131 GC
*
33662521 AGA-TTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAAATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
33662585 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
33662650 GC
131 GC
*
33662652 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTAACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* *
33662717 ACAGGGAAGCAGATCGAAGATTTCAGCATGGCATCCCTCTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
33662782 GC
131 GC
* * *
33662784 AGAATTGGCATCCTTGTGTTTATAGGGAACCGATCGAAGATAGCAGATCTG
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTG
33662835 GCATCTCCAT
Statistics
Matches: 1054, Mismatches: 49, Indels: 4
0.95 0.04 0.00
Matches are distributed among these distances:
131 251 0.24
132 803 0.76
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:33662861 original size:263 final size:264
Alignment explanation
Indices: 33661598--33662834 Score: 2190
Period size: 263 Copynumber: 4.7 Consensus size: 264
33661588 CAGAGAAACA
* * *
33661598 AGATTTGGCATCCCTATGTTTATAGGGAACAGATTGAAGATAGCAGATCTGACACTCCTATGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
*
33661663 ACAGCGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
* *
33661728 GCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTAACACTCCTGTGC
131 GCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGC
*
33661793 TTACAGCGAAGCAGATCGAAGATTTCAGGATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGA
196 TTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGA
33661858 TAGC
261 TAGC
* *
33661862 AGAATTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTATGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* *
33661927 ACAACGAAGTAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
* *
33661992 GCAGATTTGGCATCCCTATATTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGC
131 GCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGC
33662057 TTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGA
196 TTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGA
33662122 TAGC
261 TAGC
*
33662126 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* *
33662191 ACAGTGAAGCAGATCGAAGATTTCAGCATAGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
* *
33662256 GCAGATTTGACATCCTTGTGTTTATA-GGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGC
131 GCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGC
*
33662320 TTACAGCGAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGA
196 TTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGA
*
33662385 TAAC
261 TAGC
*
33662389 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATTGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
33662454 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
** *
33662519 ATAGA-TTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAAATCTGACACTCCTGTGC
131 GCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGC
33662583 TTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGA
196 TTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGA
33662648 TAGC
261 TAGC
*
33662652 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTAACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* *
33662717 ACAGGGAAGCAGATCGAAGATTTCAGCATGGCATCCCTCTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
* * *
33662782 GCAGAATTGGCATCCTTGTGTTTATAGGGAACCGATCGAAGATAGCAGATCTG
131 GCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTG
33662835 GCATCTCCAT
Statistics
Matches: 927, Mismatches: 44, Indels: 4
0.95 0.05 0.00
Matches are distributed among these distances:
262 18 0.02
263 467 0.50
264 442 0.48
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (264 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGC
TTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGA
TAGC
Found at i:33663430 original size:19 final size:19
Alignment explanation
Indices: 33663402--33663480 Score: 108
Period size: 19 Copynumber: 4.2 Consensus size: 19
33663392 TGGAATTAAG
*
33663402 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
33663421 GATATGCAATCATAGATAT
1 GATATGCAATCTTAGATAT
33663440 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33663457 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
33663478 GAT
1 GAT
33663481 CTTGTAATCT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
17 16 0.30
19 28 0.53
21 9 0.17
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:33670284 original size:17 final size:17
Alignment explanation
Indices: 33670262--33670294 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
33670252 AAATGTCACA
33670262 TGAATTAAATTAATTTT
1 TGAATTAAATTAATTTT
*
33670279 TGAATTAATTTAATTT
1 TGAATTAAATTAATTT
33670295 GACAGTTAAA
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:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TGAATTAAATTAATTTT
Found at i:33670430 original size:13 final size:13
Alignment explanation
Indices: 33670412--33670437 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33670402 AAATTTATAG
33670412 AAATTATTATAAT
1 AAATTATTATAAT
33670425 AAATTATTATAAT
1 AAATTATTATAAT
33670438 TATGATTTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:33671774 original size:26 final size:26
Alignment explanation
Indices: 33671745--33671799 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
33671735 CGATCTCTGA
33671745 TTGAGCAAAGTTCGTATATTTTCATT
1 TTGAGCAAAGTTCGTATATTTTCATT
33671771 TTGAGCAAAGTTCGTATATTTTCATT
1 TTGAGCAAAGTTCGTATATTTTCATT
33671797 TTG
1 TTG
33671800 TTAAAGTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.47
Consensus pattern (26 bp):
TTGAGCAAAGTTCGTATATTTTCATT
Found at i:33672299 original size:22 final size:22
Alignment explanation
Indices: 33672274--33672318 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
33672264 TCATGTCGTG
* *
33672274 ACGAGAAACTCCTTACGTCGCA
1 ACGAGAAACTCCCTACATCGCA
33672296 ACGAGAAACTCCCTACATCGCA
1 ACGAGAAACTCCCTACATCGCA
33672318 A
1 A
33672319 TGTCAACTTG
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:0.36, C:0.33, G:0.16, T:0.16
Consensus pattern (22 bp):
ACGAGAAACTCCCTACATCGCA
Found at i:33673431 original size:61 final size:60
Alignment explanation
Indices: 33673353--33673500 Score: 192
Period size: 61 Copynumber: 2.5 Consensus size: 60
33673343 TAGTAGTCAC
* * *
33673353 CTATGTTTTTTTTTCTTTTTTGGTCAC-CTAATTATGAAAAGTTACAAAATGGTCATCCAA
1 CTATGTTTTTTTTTCTTTTTTGGTCACTC-AACTATAAAAAGTTACAAAATGGTCAACCAA
*
33673413 CTATGTTTTCTTTTTCTTTTTTGGTCACTCAACTATAAAAAGTTACAATATGGTCAACCAA
1 CTATGTTTT-TTTTTCTTTTTTGGTCACTCAACTATAAAAAGTTACAAAATGGTCAACCAA
* * *
33673474 CTAT-TTAATTTTGTCTTTCTTGGTCAC
1 CTATGTT-TTTTTTTCTTTTTTGGTCAC
33673501 CGGCTGACTA
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
60 27 0.35
61 50 0.64
62 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (60 bp):
CTATGTTTTTTTTTCTTTTTTGGTCACTCAACTATAAAAAGTTACAAAATGGTCAACCAA
Found at i:33673985 original size:21 final size:20
Alignment explanation
Indices: 33673951--33673994 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
33673941 AAATCATATG
** *
33673951 ATTTTTAATTAATTTCTAATA
1 ATTTTTAAAAAATTT-TAAAA
33673972 ATTTTTAAAAAATTTTAAAA
1 ATTTTTAAAAAATTTTAAAA
33673992 ATT
1 ATT
33673995 ATGATTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTTTTAAAAAATTTTAAAA
Found at i:33674149 original size:8 final size:9
Alignment explanation
Indices: 33674118--33674149 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
33674108 TTTTAAAATA
33674118 ATTTTTATT
1 ATTTTTATT
33674127 ATTTTTATT
1 ATTTTTATT
33674136 ATTTTT-TT
1 ATTTTTATT
33674144 ATTTTT
1 ATTTTT
33674150 GTTGATATCG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
ATTTTTATT
Found at i:33680404 original size:7 final size:7
Alignment explanation
Indices: 33680392--33680416 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33680382 TCTTTAAGCA
33680392 ATATAAG
1 ATATAAG
33680399 ATATAAG
1 ATATAAG
33680406 ATATAAG
1 ATATAAG
33680413 ATAT
1 ATAT
33680417 GTGTATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (7 bp):
ATATAAG
Found at i:33681279 original size:4 final size:4
Alignment explanation
Indices: 33681270--33681309 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
33681260 TTGATTGTAG
*
33681270 ATGT ATGT ATGT ATTT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
33681310 TCTGCACACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.53
Consensus pattern (4 bp):
ATGT
Found at i:33685804 original size:20 final size:20
Alignment explanation
Indices: 33685776--33685829 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
33685766 CTCTTATAAA
*
33685776 TTCTAAATTTCTTTCAAAAG
1 TTCTAAATTTCTTACAAAAG
* *
33685796 TTCTTAATTTCTTACAAAAC
1 TTCTAAATTTCTTACAAAAG
* *
33685816 TACTAAATCTCTTA
1 TTCTAAATTTCTTA
33685830 AACAATTACA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.19, G:0.02, T:0.44
Consensus pattern (20 bp):
TTCTAAATTTCTTACAAAAG
Found at i:33686063 original size:20 final size:20
Alignment explanation
Indices: 33686035--33686098 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
33686025 AACTTTTTAA
*
33686035 ATTACTAAATATCTTACAAG
1 ATTATTAAATATCTTACAAG
*
33686055 ATTATTAAATATCTTAAAATG
1 ATTATTAAATATCTTACAA-G
* *
33686076 ATTATTGAATCTCTTACAA-
1 ATTATTAAATATCTTACAAG
33686095 ATTA
1 ATTA
33686099 CTATTTTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
19 4 0.11
20 17 0.45
21 17 0.45
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.41
Consensus pattern (20 bp):
ATTATTAAATATCTTACAAG
Found at i:33688179 original size:29 final size:30
Alignment explanation
Indices: 33688147--33688208 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
33688137 GATATTGTTA
*
33688147 TTTTGTCAGTTTCTATT-GAGAGAATTACT
1 TTTTGTCAATTTCTATTAGAGAGAATTACT
33688176 TTTTGTCAATTTCTATTGAGAGAGAATTACT
1 TTTTGTCAATTTCTATT-AGAGAGAATTACT
33688207 TT
1 TT
33688209 CCTATTGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 16 0.53
31 14 0.47
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (30 bp):
TTTTGTCAATTTCTATTAGAGAGAATTACT
Found at i:33690553 original size:39 final size:39
Alignment explanation
Indices: 33690483--33690574 Score: 94
Period size: 39 Copynumber: 2.4 Consensus size: 39
33690473 GTATTGTGGT
* * ** * *
33690483 ATATGCTTGAATGTTATGTGATTTTACGAGTATTATGAA
1 ATATGCTTAAATGTCATAAGATTATACGAGTATGATGAA
* * *
33690522 ATATGCTTAAATGTCATAAGATTATATGAGTATGGTGAT
1 ATATGCTTAAATGTCATAAGATTATACGAGTATGATGAA
*
33690561 ATATGCTTAGATGT
1 ATATGCTTAAATGT
33690575 TAGGTGGCTA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (39 bp):
ATATGCTTAAATGTCATAAGATTATACGAGTATGATGAA
Found at i:33692834 original size:22 final size:22
Alignment explanation
Indices: 33692806--33692851 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
33692796 CCAGCAACTA
33692806 AAGTGCATAAATTAAAAGATGG
1 AAGTGCATAAATTAAAAGATGG
33692828 AAGTGCATAAATTAAAAGATGG
1 AAGTGCATAAATTAAAAGATGG
33692850 AA
1 AA
33692852 CGAGCTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.52, C:0.04, G:0.22, T:0.22
Consensus pattern (22 bp):
AAGTGCATAAATTAAAAGATGG
Found at i:33692863 original size:26 final size:22
Alignment explanation
Indices: 33692810--33692856 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
33692800 CAACTAAAGT
*
33692810 GCATAAATTAAAAGATGGAAGT
1 GCATAAATTAAAAGATGGAAGA
33692832 GCATAAATTAAAAGATGGAACGA
1 GCATAAATTAAAAGATGGAA-GA
33692855 GC
1 GC
33692857 TTAATAAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.49, C:0.09, G:0.23, T:0.19
Consensus pattern (22 bp):
GCATAAATTAAAAGATGGAAGA
Found at i:33694545 original size:43 final size:44
Alignment explanation
Indices: 33694375--33694546 Score: 160
Period size: 43 Copynumber: 4.0 Consensus size: 44
33694365 ACACAGGATC
* * *
33694375 CGATATGTGATTTCGTGTAAGACCAC-ATCTGGGACGTTGGCAT
1 CGATATTTGATTACGTGTAAGACCACGATCTGGGAAGTTGGCAT
* * * * *
33694418 CGACT-TATGATTTATGTGTAAGACCATG-TCTGGGAAATCGGCAT
1 CGA-TATTTGA-TTACGTGTAAGACCACGATCTGGGAAGTTGGCAT
* *
33694462 CG-TATTTGATTTCGTGTAAGACC-CTATCTGGGATAG-TGGCAT
1 CGATATTTGATTACGTGTAAGACCACGATCTGGGA-AGTTGGCAT
* *
33694504 CGATATTTGATTACATGTAAGACCACGA-CTGGGACGTTGGCAT
1 CGATATTTGATTACGTGTAAGACCACGATCTGGGAAGTTGGCAT
33694547 TGTACGACCT
Statistics
Matches: 102, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 28 0.27
43 43 0.42
44 31 0.30
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (44 bp):
CGATATTTGATTACGTGTAAGACCACGATCTGGGAAGTTGGCAT
Found at i:33695099 original size:23 final size:24
Alignment explanation
Indices: 33695073--33695118 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
33695063 TGCCATGTGA
*
33695073 TATGGCTTGGTTTTGGT-TATGAT
1 TATGGCTTGATTTTGGTATATGAT
*
33695096 TATGGTTTGATTTTGGTATATGA
1 TATGGCTTGATTTTGGTATATGA
33695119 AATGTGATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.17, C:0.02, G:0.28, T:0.52
Consensus pattern (24 bp):
TATGGCTTGATTTTGGTATATGAT
Found at i:33697028 original size:37 final size:37
Alignment explanation
Indices: 33696987--33697060 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
33696977 CGTGCATATA
* *
33696987 AATCTAGTCTATTCAGGAAAAACATACCATATTTAAC
1 AATCTAGTCCATTAAGGAAAAACATACCATATTTAAC
33697024 AATCTAGTCCATTAAGGAAAAACATACCATATTTAAC
1 AATCTAGTCCATTAAGGAAAAACATACCATATTTAAC
33697061 CATTTCCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.28
Consensus pattern (37 bp):
AATCTAGTCCATTAAGGAAAAACATACCATATTTAAC
Found at i:33697625 original size:23 final size:23
Alignment explanation
Indices: 33697599--33697647 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
33697589 GAATGCTTAG
33697599 TAAGCTTGTATAAACTTTAAACA
1 TAAGCTTGTATAAACTTTAAACA
33697622 TAAGCTTGTATAAACTTTAAACA
1 TAAGCTTGTATAAACTTTAAACA
33697645 TAA
1 TAA
33697648 CATACCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (23 bp):
TAAGCTTGTATAAACTTTAAACA
Found at i:33712292 original size:45 final size:45
Alignment explanation
Indices: 33712142--33712464 Score: 212
Period size: 45 Copynumber: 7.2 Consensus size: 45
33712132 ATATACGGAT
* * * **
33712142 TCATACATGCGAAA-TCATAGAAGA-AGATTCATATATATGGCGGAC
1 TCATACATGC-AAATTCATAGAAGATA-ACTCATAGATATGTCAAAC
* * *
33712187 TCATACATGCAGA-TCATAGAAGATGA-TACATAGGTATGTCAAAC
1 TCATACATGCAAATTCATAGAAGATAACT-CATAGATATGTCAAAC
* * **
33712231 TTATATATGCGGATTCATAGAAGATAACTCATAGATATGTCAAAC
1 TCATACATGCAAATTCATAGAAGATAACTCATAGATATGTCAAAC
* * * * * * *
33712276 TCATACATGTAAATTCACAAAAG-GAACTTCATAGATAAAGT-AGAT
1 TCATACATGCAAATTCATAGAAGATAAC-TCATAGAT-ATGTCAAAC
* * * * * *
33712321 TCAAACATGCAGATTCAAAGAAGATGATTCATAGATATGGCAAAC
1 TCATACATGCAAATTCATAGAAGATAACTCATAGATATGTCAAAC
* * * *
33712366 TCATACATGCAAATTTACAGAAGA-AACTTCATAGATAAAG-CAAAT
1 TCATACATGCAAATTCATAGAAGATAAC-TCATAGAT-ATGTCAAAC
* * * * * *
33712411 TCAAACATACGAATTCATAGAAGATGATTCATAGATATGACAAAC
1 TCATACATGCAAATTCATAGAAGATAACTCATAGATATGTCAAAC
33712456 TCATACATG
1 TCATACATG
33712465 GAAACATACA
Statistics
Matches: 212, Mismatches: 54, Indels: 24
0.73 0.19 0.08
Matches are distributed among these distances:
43 1 0.00
44 42 0.20
45 161 0.76
46 8 0.04
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (45 bp):
TCATACATGCAAATTCATAGAAGATAACTCATAGATATGTCAAAC
Found at i:33712353 original size:90 final size:89
Alignment explanation
Indices: 33712237--33712524 Score: 389
Period size: 90 Copynumber: 3.2 Consensus size: 89
33712227 AAACTTATAT
* * * * * *
33712237 ATGCGGATTCATAGAAGATAACTCATAGATATGTCAAACTCATACATGTAAATTCACAAAAGGAA
1 ATGCAGATTCATAGAAGATGATTCATAGATATGACAAACTCATACATGCAAATT-ACAGAAGGAA
33712302 CTTCATAGATAAAGTAGATTCAAAC
65 CTTCATAGATAAAGTAGATTCAAAC
* * *
33712327 ATGCAGATTCAAAGAAGATGATTCATAGATATGGCAAACTCATACATGCAAATTTACAGAAGAAA
1 ATGCAGATTCATAGAAGATGATTCATAGATATGACAAACTCATACATGCAAA-TTACAGAAGGAA
* *
33712392 CTTCATAGATAAAGCAAATTCAAAC
65 CTTCATAGATAAAGTAGATTCAAAC
* * *
33712417 ATAC-GAATTCATAGAAGATGATTCATAGATATGACAAACTCATACATGGAAACATACAGAAGGA
1 ATGCAG-ATTCATAGAAGATGATTCATAGATATGACAAACTCATACATGCAAA-TTACAGAAGGA
*
33712481 ACTTCATAGATAAAGTAGATTCATAC
64 ACTTCATAGATAAAGTAGATTCAAAC
*
33712507 ATGTAGATTCATAGAAGA
1 ATGCAGATTCATAGAAGA
33712525 AACTTTATAA
Statistics
Matches: 173, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
89 1 0.01
90 169 0.98
91 3 0.02
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (89 bp):
ATGCAGATTCATAGAAGATGATTCATAGATATGACAAACTCATACATGCAAATTACAGAAGGAAC
TTCATAGATAAAGTAGATTCAAAC
Found at i:33712464 original size:135 final size:134
Alignment explanation
Indices: 33712140--33712464 Score: 316
Period size: 135 Copynumber: 2.4 Consensus size: 134
33712130 TTATATACGG
* * * * *
33712140 ATTCATACATGCGAAATCATAGAAGAAGATTCATATATATGGCGGACTCATACATGCAGATCATA
1 ATTCATACATGCGAATTCATAGAAGAAGATTCATAGATATGACAGACTCATACATGCAGATCAAA
* * * * ** * *
33712205 GAAGATGATACATAGGTATGTCAAACTTATATATGCGGATTCATAGAAGATAACTCATAGATATG
66 GAAGATGATACATAGATATGGCAAACTCATACATGCAAATTCACAGAAGATAACTCATAGATAAG
33712270 TCAA
131 TCAA
* ** * * * * * * *
33712274 ACTCATACATGTAAATTCACAAAAGGAA-CTTCATAGATA-AAGTAGATTCAAACATGCAGATTC
1 ATTCATACATGCGAATTCATAGAA-GAAGATTCATAGATATGA-CAGACTCATACATGCAGA-TC
* *
33712337 AAAGAAGATGATTCATAGATATGGCAAACTCATACATGCAAATTTACAGAAGA-AACTTCATAGA
63 AAAGAAGATGATACATAGATATGGCAAACTCATACATGCAAATTCACAGAAGATAAC-TCATAGA
33712401 TAAAG-CAA
127 T-AAGTCAA
* * * *
33712409 ATTCAAACATACGAATTCATAGAAGATGATTCATAGATATGACAAACTCATACATG
1 ATTCATACATGCGAATTCATAGAAGAAGATTCATAGATATGACAGACTCATACATG
33712465 GAAACATACA
Statistics
Matches: 145, Mismatches: 39, Indels: 13
0.74 0.20 0.07
Matches are distributed among these distances:
134 46 0.32
135 96 0.66
136 3 0.02
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (134 bp):
ATTCATACATGCGAATTCATAGAAGAAGATTCATAGATATGACAGACTCATACATGCAGATCAAA
GAAGATGATACATAGATATGGCAAACTCATACATGCAAATTCACAGAAGATAACTCATAGATAAG
TCAA
Found at i:33712523 original size:45 final size:45
Alignment explanation
Indices: 33712242--33712529 Score: 157
Period size: 45 Copynumber: 6.4 Consensus size: 45
33712232 TATATATGCG
* * *
33712242 GATTCATAGAAGATAAC-TCATAGAT-ATGTCAAACTCATACATGTA
1 GATTCATAGAAG-GAACTTCATAGATAAAG-CAAATTCATACATGTA
* * * * * * *
33712287 AATTCACAAAAGGAACTTCATAGATAAAGTAGATTCAAACATGCA
1 GATTCATAGAAGGAACTTCATAGATAAAGCAAATTCATACATGTA
* ** * *
33712332 GATTCAAAGAA-GATGA-TTCATAGATATGGCAAACTCATACATGCA
1 GATTCATAGAAGGA--ACTTCATAGATAAAGCAAATTCATACATGTA
* * * * *
33712377 AATTTACAGAAGAAACTTCATAGATAAAGCAAATTCAAACA--TA
1 GATTCATAGAAGGAACTTCATAGATAAAGCAAATTCATACATGTA
* *
33712420 CGAATTCATAGAA-GATGA-TTCATAGAT-ATGACAAACTCATACATG--
1 -G-ATTCATAGAAGGA--ACTTCATAGATAAAG-CAAATTCATACATGTA
** * *
33712465 GAAACATACAGAAGGAACTTCATAGATAAAGTAGATTCATACATGTA
1 GATTCAT--AGAAGGAACTTCATAGATAAAGCAAATTCATACATGTA
*
33712512 GATTCATAGAAGAAACTT
1 GATTCATAGAAGGAACTT
33712530 TATAAGCATA
Statistics
Matches: 179, Mismatches: 44, Indels: 40
0.68 0.17 0.15
Matches are distributed among these distances:
43 5 0.03
44 11 0.06
45 149 0.83
46 9 0.05
47 5 0.03
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.25
Consensus pattern (45 bp):
GATTCATAGAAGGAACTTCATAGATAAAGCAAATTCATACATGTA
Found at i:33712592 original size:44 final size:46
Alignment explanation
Indices: 33712497--33712600 Score: 124
Period size: 44 Copynumber: 2.3 Consensus size: 46
33712487 TAGATAAAGT
* * *
33712497 AGATTCATACATGT-AGATTCATAGAAGAAACTTTATAAGCATAGT
1 AGATTCATACATGTGAGATTCATAAAAGAAACTTCATAAGCATAGC
* * *
33712542 GGATTCATTCATGTGA-ATTCATAAAAG-AACTTCATAATCATAGC
1 AGATTCATACATGTGAGATTCATAAAAGAAACTTCATAAGCATAGC
*
33712586 ATATTCATACATGTG
1 AGATTCATACATGTG
33712601 CTTAAAGATC
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
44 26 0.53
45 22 0.45
46 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.33
Consensus pattern (46 bp):
AGATTCATACATGTGAGATTCATAAAAGAAACTTCATAAGCATAGC
Found at i:33714466 original size:15 final size:15
Alignment explanation
Indices: 33714442--33714472 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33714432 AGGCATGGAT
*
33714442 GATTAGGTTGAATTG
1 GATTAAGTTGAATTG
33714457 GATTAAGTTGAATTG
1 GATTAAGTTGAATTG
33714472 G
1 G
33714473 CATGTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (15 bp):
GATTAAGTTGAATTG
Found at i:33715435 original size:16 final size:18
Alignment explanation
Indices: 33715408--33715441 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
33715398 TAGAACCAAG
33715408 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
33715425 TTGAG-AAATTAATTTAA
1 TTGAGAAAATTAATTTAA
33715442 ATTAATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:33717695 original size:37 final size:37
Alignment explanation
Indices: 33717654--33717895 Score: 306
Period size: 37 Copynumber: 6.5 Consensus size: 37
33717644 TAGTCTGCCA
* **
33717654 GACTTGTCGTCATGTTTCAAGTTATGACAATTTGCTG
1 GACTTGTCCTCATGTTTCAAGTTATGACAATCCGCTG
* * * *
33717691 GACTTTTCCTTATGTTTCAAGTTATGACAACCCGTTG
1 GACTTGTCCTCATGTTTCAAGTTATGACAATCCGCTG
* ** *
33717728 AACTTAACCT-ATCGTTTCAAGTTATGACATTCCGCTG
1 GACTTGTCCTCAT-GTTTCAAGTTATGACAATCCGCTG
* *
33717765 GACTTGTCCTCACGTTTCAAGTTATGACATTCCGCTG
1 GACTTGTCCTCATGTTTCAAGTTATGACAATCCGCTG
* *
33717802 GACTTGTCCTCATGTTTCAAGTTATGGCAGTCCGCTG
1 GACTTGTCCTCATGTTTCAAGTTATGACAATCCGCTG
* * *
33717839 GACTTATCATCATGCTTCAAGTTATGACAATCCGCTG
1 GACTTGTCCTCATGTTTCAAGTTATGACAATCCGCTG
33717876 GACTTGTCCTCATGTTTCAA
1 GACTTGTCCTCATGTTTCAA
33717896 TATACGATGG
Statistics
Matches: 175, Mismatches: 28, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
36 2 0.01
37 172 0.98
38 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (37 bp):
GACTTGTCCTCATGTTTCAAGTTATGACAATCCGCTG
Found at i:33717930 original size:74 final size:74
Alignment explanation
Indices: 33717654--33717930 Score: 236
Period size: 74 Copynumber: 3.7 Consensus size: 74
33717644 TAGTCTGCCA
* * * ** * * * * *
33717654 GACTTGTCGTCATGTTTCAAGTTATGACAATTTGCTGGACTTTTCCTTATGTTTCAAGTTATGAC
1 GACTTGTCCTCATGTTTCAAGTTACGACAGTCCGCTGCACTTGTCCTCACGCTTCAAGTTATGAC
* *
33717719 AACCCGTTG
66 AATCCGCTG
* ** * * * *
33717728 AACTTAACCT-ATCGTTTCAAGTTATGACATTCCGCTGGACTTGTCCTCACGTTTCAAGTTATGA
1 GACTTGTCCTCAT-GTTTCAAGTTACGACAGTCCGCTGCACTTGTCCTCACGCTTCAAGTTATGA
*
33717792 CATTCCGCTG
65 CAATCCGCTG
* * * * * *
33717802 GACTTGTCCTCATGTTTCAAGTTATGGCAGTCCGCTGGACTTATCATCATGCTTCAAGTTATGAC
1 GACTTGTCCTCATGTTTCAAGTTACGACAGTCCGCTGCACTTGTCCTCACGCTTCAAGTTATGAC
33717867 AATCCGCTG
66 AATCCGCTG
** * *
33717876 GACTTGTCCTCATGTTTCAA-TATACGATGGTCCGTTGCA-TGTGTCCTCAGGCTTC
1 GACTTGTCCTCATGTTTCAAGT-TACGACAGTCCGCTGCACT-TGTCCTCACGCTTC
33717931 TATGCTAAGG
Statistics
Matches: 167, Mismatches: 32, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
73 4 0.02
74 161 0.96
75 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.36
Consensus pattern (74 bp):
GACTTGTCCTCATGTTTCAAGTTACGACAGTCCGCTGCACTTGTCCTCACGCTTCAAGTTATGAC
AATCCGCTG
Found at i:33718123 original size:22 final size:22
Alignment explanation
Indices: 33718075--33718133 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
33718065 GGAAATTCTG
*
33718075 AAATTTT-AGTG-TG-AAGTTA
1 AAATTTTAAGTGTTGAAACTTA
*
33718094 AAAATTTAAGTGTTGAAACTTA
1 AAATTTTAAGTGTTGAAACTTA
*
33718116 AAATTTTAAGTGTCGAAA
1 AAATTTTAAGTGTTGAAA
33718134 TGCAGAAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 6 0.18
20 4 0.12
21 2 0.06
22 21 0.64
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.37
Consensus pattern (22 bp):
AAATTTTAAGTGTTGAAACTTA
Found at i:33726939 original size:6 final size:6
Alignment explanation
Indices: 33726930--33726968 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
33726920 CAAGTTCAAC
*
33726930 ACATAT ACATAT ACATAT ACATAT GCATACAT ACATAT A
1 ACATAT ACATAT ACATAT ACATAT ACAT--AT ACATAT A
33726969 TGGTTGGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 24 0.83
8 5 0.17
ACGTcount: A:0.49, C:0.18, G:0.03, T:0.31
Consensus pattern (6 bp):
ACATAT
Found at i:33733420 original size:18 final size:18
Alignment explanation
Indices: 33733397--33733443 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
33733387 ATGGTGTACC
*
33733397 AAATATTATT-CCTTTAAT
1 AAATATTATTACATTT-AT
*
33733415 AAATATAATTACATTTAT
1 AAATATTATTACATTTAT
*
33733433 AAATTTTATTA
1 AAATATTATTA
33733444 AAGCTACCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATATTATTACATTTAT
Found at i:33737394 original size:35 final size:35
Alignment explanation
Indices: 33737332--33737399 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
33737322 ATAGAGGCAT
* *
33737332 ATGTTCGAGTACCCATGCTAGTATACTCATACAGA
1 ATGTACGAGTACCCATACTAGTATACTCATACAGA
* * *
33737367 ATGTACGAGTTCCCATATTAGTGTACTCATACA
1 ATGTACGAGTACCCATACTAGTATACTCATACA
33737400 CCCAAGTACC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (35 bp):
ATGTACGAGTACCCATACTAGTATACTCATACAGA
Found at i:33746001 original size:3 final size:3
Alignment explanation
Indices: 33745993--33746022 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
33745983 ATAAATCACG
33745993 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
33746023 TTTTCAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:33753491 original size:20 final size:20
Alignment explanation
Indices: 33753466--33753504 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
33753456 CTCGCAGGTA
33753466 TGGCGACGTGGAGACGGACT
1 TGGCGACGTGGAGACGGACT
*
33753486 TGGCGACGTGGAGGCGGAC
1 TGGCGACGTGGAGACGGAC
33753505 GTGTGTGGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.49, T:0.13
Consensus pattern (20 bp):
TGGCGACGTGGAGACGGACT
Found at i:33754309 original size:134 final size:133
Alignment explanation
Indices: 33754171--33754516 Score: 399
Period size: 133 Copynumber: 2.6 Consensus size: 133
33754161 GCAACTTCAG
* * * * * *
33754171 GGAGATAAGACTGGTGACTTAAATCTGCTCCATTACCGCTATATGG-AGATAAGATTCACCGTCT
1 GGAGATAAGGCTTGTGGCTTAAATCTGCTCCACTACCACT-TAGGGAAGATAAGATTCACCGTCT
* * *
33754235 TCGATCTGCTCCACTGCTA-CTTCAGGGAGATAAGATCTACAATTTTCAGCCTGCTCCTTTGCTA
65 TCGATCTGCTCCACTGCTATCTCCA-GGAGATAAGATCTA-AATCTTCAACCTGCTCCTTTGCTA
33754299 CCTCAA
128 CCTCAA
* * * ****
33754305 GGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTACTACTTCGGGAAGATAAGATTTGTTGTCTT
1 GGAGATAAGGCTTGTGGCTTAAATCTGCTCCACTACCACTTAGGGAAGATAAGATTCACCGTCTT
* * * *
33754370 TGATCTGCTCCCCTGCTATCTCCATGAGATAAGATCTAAATCTTCAACTTGCTCCTTTGCTACCT
66 CGATCTGCTCCACTGCTATCTCCAGGAGATAAGATCTAAATCTTCAACCTGCTCCTTTGCTACCT
33754435 CAA
131 CAA
* * * * * * *
33754438 GGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTACTACCTCGGAAAGATAAGATTCGCTGTCTT
1 GGAGATAAGGCTTGTGGCTTAAATCTGCTCCACTACCACTTAGGGAAGATAAGATTCACCGTCTT
*
33754503 CGATCTACTCCACT
66 CGATCTGCTCCACT
33754517 ACTGCTTATG
Statistics
Matches: 183, Mismatches: 27, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
133 102 0.56
134 77 0.42
135 4 0.02
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (133 bp):
GGAGATAAGGCTTGTGGCTTAAATCTGCTCCACTACCACTTAGGGAAGATAAGATTCACCGTCTT
CGATCTGCTCCACTGCTATCTCCAGGAGATAAGATCTAAATCTTCAACCTGCTCCTTTGCTACCT
CAA
Found at i:33754467 original size:44 final size:44
Alignment explanation
Indices: 33754285--33754479 Score: 137
Period size: 44 Copynumber: 4.4 Consensus size: 44
33754275 AATTTTCAGC
**
33754285 CTGCTCCTTTGCTACCTCAAGGAGATAAGGCTTGTGGCTTAAAT
1 CTGCTCCCCTGCTACCTCAAGGAGATAAGGCTTGTGGCTTAAAT
* * * ** * **
33754329 CTGCTCCCCTACTACTTC-GGGAAGATAAGATTTGTTGTCTTTGAT
1 CTGCTCCCCTGCTACCTCAAGG-AGATAAGGCTTG-TGGCTTAAAT
* * * * ** *
33754374 CTGCTCCCCTGCTATCTCCATGAGATAAGATCTAAAT--CTTCAA-
1 CTGCTCCCCTGCTACCTCAAGGAGATAAG-GCT-TGTGGCTTAAAT
**
33754417 CTTGCTCCTTTGCTACCTCAAGGAGATAAGGCTTGTGGCTTAAAT
1 C-TGCTCCCCTGCTACCTCAAGGAGATAAGGCTTGTGGCTTAAAT
*
33754462 CTGCTCCCCTACTACCTC
1 CTGCTCCCCTGCTACCTC
33754480 GGAAAGATAA
Statistics
Matches: 109, Mismatches: 33, Indels: 18
0.68 0.21 0.11
Matches are distributed among these distances:
42 1 0.01
43 5 0.05
44 70 0.64
45 30 0.28
46 3 0.03
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (44 bp):
CTGCTCCCCTGCTACCTCAAGGAGATAAGGCTTGTGGCTTAAAT
Found at i:33754469 original size:133 final size:134
Alignment explanation
Indices: 33754217--33754547 Score: 452
Period size: 133 Copynumber: 2.5 Consensus size: 134
33754207 CGCTATATGG
* * * *
33754217 AGATAAGATTCACCGTCTTCGATCTGCTCCACTGCTACTTCAGGGAGATAAGATCTACAATTTTC
1 AGATAAGATTCGCTGTCTTCGATCTGCTCCACTGCTACTCCAGGGAGATAAGATCTACAATCTTC
* *
33754282 AGCCTGCTCCTTTGCTACCTCAAGGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTACTACTTC
66 AACCTGCTCCTTTGCTACCTCAAGGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTACTACCTC
*
33754347 GGGA
131 GGAA
* * * * *
33754351 AGATAAGATTTGTTGTCTTTGATCTGCTCCCCTGCTATCTCCA-TGAGATAAGATCTA-AATCTT
1 AGATAAGATTCGCTGTCTTCGATCTGCTCCACTGCTA-CTCCAGGGAGATAAGATCTACAATCTT
*
33754414 CAACTTGCTCCTTTGCTACCTCAAGGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTACTACCT
65 CAACCTGCTCCTTTGCTACCTCAAGGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTACTACCT
33754479 CGGAA
130 CGGAA
* * * * * * *
33754484 AGATAAGATTCGCTGTCTTCGATCTACTCCACTACTGCT-TATGGAGACAAGATCTATAATCTTC
1 AGATAAGATTCGCTGTCTTCGATCTGCTCCACTGCTACTCCAGGGAGATAAGATCTACAATCTTC
33754548 TTTAATCTAT
Statistics
Matches: 171, Mismatches: 23, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
131 1 0.01
132 14 0.08
133 108 0.63
134 44 0.26
135 4 0.02
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (134 bp):
AGATAAGATTCGCTGTCTTCGATCTGCTCCACTGCTACTCCAGGGAGATAAGATCTACAATCTTC
AACCTGCTCCTTTGCTACCTCAAGGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTACTACCTC
GGAA
Found at i:33754611 original size:46 final size:46
Alignment explanation
Indices: 33754545--33754675 Score: 199
Period size: 46 Copynumber: 2.8 Consensus size: 46
33754535 ATCTATAATC
* *
33754545 TTCTTTAATCTATCCCACTGCATCTCAGGGGTATAGGATCTGCATT
1 TTCTTTAATCCATCCCACTGCGTCTCAGGGGTATAGGATCTGCATT
* * *
33754591 TTCTTTAACCCATCCTACTGCGTCTCAGGGGCATAGGATCTGCATT
1 TTCTTTAATCCATCCCACTGCGTCTCAGGGGTATAGGATCTGCATT
* *
33754637 TTCTTCAATCCATCCCACTGCGTCTCAAGGGTATAGGAT
1 TTCTTTAATCCATCCCACTGCGTCTCAGGGGTATAGGAT
33754676 TTGTAATTTC
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (46 bp):
TTCTTTAATCCATCCCACTGCGTCTCAGGGGTATAGGATCTGCATT
Found at i:33766643 original size:25 final size:25
Alignment explanation
Indices: 33766590--33766646 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
33766580 ATTTTTTTTA
*
33766590 AAAATAATAATATATGACAAAATCT
1 AAAATAATAATATATGACAAAAGCT
*
33766615 AAAATAAGTAATATAT-ATATAAAGC-
1 AAAATAA-TAATATATGACA-AAAGCT
33766640 AAAATAA
1 AAAATAA
33766647 ATCACATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 16 0.57
26 12 0.43
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.26
Consensus pattern (25 bp):
AAAATAATAATATATGACAAAAGCT
Found at i:33766890 original size:20 final size:20
Alignment explanation
Indices: 33766850--33766890 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
33766840 TGATAATAGG
*
33766850 ACAGTAATAATAGTAATAAT
1 ACAGTAATAATAGTAAAAAT
33766870 ACAGTAATAA-AGTAGAAAAT
1 ACAGTAATAATAGTA-AAAAT
33766890 A
1 A
33766891 GTAATGGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.59, C:0.05, G:0.12, T:0.24
Consensus pattern (20 bp):
ACAGTAATAATAGTAAAAAT
Found at i:33766962 original size:26 final size:26
Alignment explanation
Indices: 33766917--33766966 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
33766907 AAGCATGATA
*
33766917 ATATGTTAATGATAAAAATAAAAATG
1 ATATGTTAATAATAAAAATAAAAATG
* *
33766943 ATATGTTAATAATTATAATAAAAA
1 ATATGTTAATAATAAAAATAAAAA
33766967 AATAGTAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (26 bp):
ATATGTTAATAATAAAAATAAAAATG
Found at i:33767145 original size:3 final size:3
Alignment explanation
Indices: 33767113--33767215 Score: 55
Period size: 3 Copynumber: 33.0 Consensus size: 3
33767103 TTAATACGGG
* * * * *
33767113 TAA TAA TAT TAA AAA TTAA TAA GAA GAA TAA TAA TATG TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * * * *
33767160 TAA AAA TAG TAA CAA CAA TAA TAAA TACA GTAA TAA TAT TAT TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TA-A -TAA TAA TAA TAA TAA TAA
33767207 TAA TAA TAA
1 TAA TAA TAA
33767216 AAATGTCCAA
Statistics
Matches: 78, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
2 2 0.03
3 65 0.83
4 9 0.12
5 2 0.03
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:33769729 original size:46 final size:46
Alignment explanation
Indices: 33769669--33769988 Score: 424
Period size: 46 Copynumber: 7.0 Consensus size: 46
33769659 TTTGACATGA
* * * * ** * *
33769669 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGC
** *
33769715 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGC
*** ** * *
33769761 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGC
*
33769807 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGC
* *
33769853 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGC
* *
33769899 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGC
*
33769945 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAG
33769989 AGAGCACACT
Statistics
Matches: 250, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 250 1.00
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGC
Found at i:33779975 original size:20 final size:20
Alignment explanation
Indices: 33779950--33779989 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
33779940 TTAATTTTGG
33779950 ATTGATTCATTTTTTAGATC
1 ATTGATTCATTTTTTAGATC
33779970 ATTGATTCATTTTTTAGATC
1 ATTGATTCATTTTTTAGATC
33779990 TTATAGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.55
Consensus pattern (20 bp):
ATTGATTCATTTTTTAGATC
Found at i:33780887 original size:15 final size:15
Alignment explanation
Indices: 33780854--33780890 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
33780844 ATTTTTTTAT
33780854 TATATA-ATTGTGTG
1 TATATATATTGTGTG
33780868 -A-ATATATTGTGTG
1 TATATATATTGTGTG
33780881 TATATATATT
1 TATATATATT
33780891 ATATGCATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.15
13 9 0.45
14 1 0.05
15 7 0.35
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.51
Consensus pattern (15 bp):
TATATATATTGTGTG
Found at i:33783093 original size:26 final size:26
Alignment explanation
Indices: 33783054--33783163 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
33783044 TTATACAAAT
*
33783054 TGATAATAGATTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
33783080 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
33783106 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
33783132 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
33783158 TGATAA
1 TGATAA
33783164 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:33784671 original size:26 final size:26
Alignment explanation
Indices: 33784606--33784681 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
33784596 AAAAGTAGCT
* *
33784606 AAATTACTGTAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-GTGGA
*
33784634 AAATTACTGTTATACCCCTAGGTGTA
1 AAATTACTGTTATACCCCTAGGTGGA
* *
33784660 AAATTACCGTTACACCCCTAGG
1 AAATTACTGTTATACCCCTAGG
33784682 GTTAATTTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.53
27 1 0.02
28 19 0.44
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.30
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGGTGGA
Found at i:33784825 original size:27 final size:27
Alignment explanation
Indices: 33784784--33784950 Score: 210
Period size: 27 Copynumber: 6.2 Consensus size: 27
33784774 GAGGAAGCGT
*
33784784 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
33784811 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
33784838 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
33784865 TCTGGTGGCTCTCCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
33784892 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
33784920 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
33784946 TCTGG
1 TCTGG
33784951 CAGCCATGCT
Statistics
Matches: 127, Mismatches: 12, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
26 5 0.04
27 107 0.84
28 15 0.12
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:33784917 original size:81 final size:81
Alignment explanation
Indices: 33784782--33784950 Score: 250
Period size: 81 Copynumber: 2.1 Consensus size: 81
33784772 TGGAGGAAGC
* *
33784782 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-ATCTGGTGG
1 GTTCTGGTGGCTATCCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTGTATCTGGTGA
33784846 CTCTGCCACATATATCT
66 CTCTGCCACAT-TATCT
* * * * *
33784863 GTTCTGGTGGCTCTCCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGA
1 GTTCTGGTGGCTATCCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTGTATCTGGTGA
*
33784928 CTCTGTCACATTATCT
66 CTCTGCCACATTATCT
33784944 GTTCTGG
1 GTTCTGG
33784951 CAGCCATGCT
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 61 0.77
82 18 0.23
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (81 bp):
GTTCTGGTGGCTATCCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTGTATCTGGTGA
CTCTGCCACATTATCT
Found at i:33785036 original size:19 final size:22
Alignment explanation
Indices: 33785012--33785051 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
33785002 CTCCCCACAC
33785012 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
33785031 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
33785052 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:33788975 original size:26 final size:26
Alignment explanation
Indices: 33788913--33789021 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
33788903 TGATACAAAT
33788913 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
33788938 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
33788964 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
33788990 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
33789016 TGATAA
1 TGATAA
33789022 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 21 0.26
26 59 0.74
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:33790707 original size:26 final size:27
Alignment explanation
Indices: 33790631--33790791 Score: 189
Period size: 27 Copynumber: 6.3 Consensus size: 27
33790621 TGGAGGAAGC
* *
33790631 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACATATATCT
*
33790658 GATCTGGTGGCTCTGCCACA-ATATCT
1 GTTCTGGTGGCTCTGCCACATATATCT
33790684 G-TCTGGTGGCTCTGCCACATATA---
1 GTTCTGGTGGCTCTGCCACATATATCT
33790707 --TCTGGTGGCTCTG-CACATATATCT
1 GTTCTGGTGGCTCTGCCACATATATCT
33790731 GTTCTGGTGGCTCTGCCACGAT-TATCT
1 GTTCTGGTGGCTCTGCCAC-ATATATCT
* *
33790758 GTATCTGGTGACTCTGTCACAT-TATCT
1 GT-TCTGGTGGCTCTGCCACATATATCT
33790785 GTTCTGG
1 GTTCTGG
33790792 CAGCCATGCT
Statistics
Matches: 121, Mismatches: 4, Indels: 19
0.84 0.03 0.13
Matches are distributed among these distances:
21 8 0.07
22 13 0.11
25 18 0.15
26 28 0.23
27 37 0.31
28 17 0.14
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACATATATCT
Found at i:33790729 original size:47 final size:48
Alignment explanation
Indices: 33790659--33790758 Score: 161
Period size: 48 Copynumber: 2.1 Consensus size: 48
33790649 CAAATATCTG
33790659 ATCTGGTGGCTCTGCCACAATATCTG-TCTGGTGGCTCTGCCAC-ATAT
1 ATCTGGTGGCTCTGCCACAATATCTGTTCTGGTGGCTCTGCCACGAT-T
33790706 ATCTGGTGGCTCTG-CACATATATCTGTTCTGGTGGCTCTGCCACGATT
1 ATCTGGTGGCTCTGCCACA-ATATCTGTTCTGGTGGCTCTGCCACGATT
33790754 ATCTG
1 ATCTG
33790759 TATCTGGTGA
Statistics
Matches: 50, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
46 4 0.08
47 21 0.42
48 23 0.46
49 2 0.04
ACGTcount: A:0.16, C:0.26, G:0.24, T:0.34
Consensus pattern (48 bp):
ATCTGGTGGCTCTGCCACAATATCTGTTCTGGTGGCTCTGCCACGATT
Found at i:33797513 original size:25 final size:25
Alignment explanation
Indices: 33797460--33797516 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
33797450 ATTTTTTTTA
*
33797460 AAAATAATAATATATGACAAAATCT
1 AAAATAATAATATATGACAAAAGCT
*
33797485 AAAATAAGTAATATAT-ATATAAAGC-
1 AAAATAA-TAATATATGACA-AAAGCT
33797510 AAAATAA
1 AAAATAA
33797517 ATCACATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 16 0.57
26 12 0.43
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.26
Consensus pattern (25 bp):
AAAATAATAATATATGACAAAAGCT
Found at i:33797691 original size:31 final size:31
Alignment explanation
Indices: 33797635--33797700 Score: 75
Period size: 31 Copynumber: 2.1 Consensus size: 31
33797625 TAGAAATTTG
33797635 TAAAAAAATGAAAATAAAATGAATAAATAA-A
1 TAAAAAAATGAAAATAAAATGAAT-AATAATA
*
33797666 TAAAAAAAT-ATAATATAATAT-AATAATAATA
1 TAAAAAAATGA-AA-ATAAAATGAATAATAATA
33797697 TAAA
1 TAAA
33797701 TTGATTAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
30 6 0.19
31 19 0.61
32 6 0.19
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (31 bp):
TAAAAAAATGAAAATAAAATGAATAATAATA
Found at i:33797761 original size:20 final size:20
Alignment explanation
Indices: 33797721--33797761 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
33797711 TGATAATAGG
*
33797721 ACAGTAATAATAGTAATAAT
1 ACAGTAATAATAGTAAAAAT
33797741 ACAGTAATAA-AGTAGAAAAT
1 ACAGTAATAATAGTA-AAAAT
33797761 A
1 A
33797762 GTAATGGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.59, C:0.05, G:0.12, T:0.24
Consensus pattern (20 bp):
ACAGTAATAATAGTAAAAAT
Found at i:33797833 original size:26 final size:26
Alignment explanation
Indices: 33797788--33797837 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
33797778 AAGCATGATA
*
33797788 ATATGTTAATGATAAAAATAAAAATG
1 ATATGTTAATAATAAAAATAAAAATG
* *
33797814 ATATGTTAATAATTATAATAAAAA
1 ATATGTTAATAATAAAAATAAAAA
33797838 ATAGTAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (26 bp):
ATATGTTAATAATAAAAATAAAAATG
Found at i:33798012 original size:3 final size:3
Alignment explanation
Indices: 33797980--33798082 Score: 55
Period size: 3 Copynumber: 33.0 Consensus size: 3
33797970 TTAATACGGG
* * * * *
33797980 TAA TAA TAT TAA AAA TTAA TAA GAA GAA TAA TAA TATG TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * * * *
33798027 TAA AAA TAG TAA CAA CAA TAA TAAA TACA GTAA TAA TAT TAT TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TA-A -TAA TAA TAA TAA TAA TAA
33798074 TAA TAA TAA
1 TAA TAA TAA
33798083 AAATGTCCAA
Statistics
Matches: 78, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
2 2 0.03
3 65 0.83
4 9 0.12
5 2 0.03
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:33800630 original size:46 final size:46
Alignment explanation
Indices: 33800526--33800840 Score: 406
Period size: 46 Copynumber: 7.0 Consensus size: 46
33800516 TTTGACATGA
* * * * * * *
33800526 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTT-TTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
** * * *
33800571 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*** *** *
33800617 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
33800663 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
33800709 TGCCATGGTATCTTTC-A--ATGGTCTTACACGTTTCATATCAGG-
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
33800751 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
33800797 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
33800841 AGAGCACACT
Statistics
Matches: 243, Mismatches: 22, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
42 16 0.07
43 25 0.10
45 57 0.23
46 145 0.60
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:33800787 original size:134 final size:137
Alignment explanation
Indices: 33800521--33800840 Score: 414
Period size: 134 Copynumber: 2.4 Consensus size: 137
33800511 TTATCTTTGA
* * * * * * * * *
33800521 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTT-TTGTCATGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTT
** * ***
33800585 TCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTA
66 TCAA-CATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
* *
33800650 TTTCCCGT
130 TTTCACAT
33800658 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTT
* *
33800723 TC-A-ATGGTCTTACACGTTTCATATCA-GGTGCCATGGTATCTTTCAACCATGGTCTTACACAT
66 TCAACATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACAT
*
33800785 TTCATAT
131 TTCACAT
*
33800792 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
33800841 AGAGCACACT
Statistics
Matches: 161, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
134 84 0.52
135 19 0.12
137 37 0.23
138 21 0.13
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.39
Consensus pattern (137 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTT
TCAACATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACAT
TTCACAT
Found at i:33803006 original size:18 final size:20
Alignment explanation
Indices: 33802991--33803027 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33802981 TAATAATAAA
*
33802991 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
33803011 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
33803028 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:33805198 original size:12 final size:12
Alignment explanation
Indices: 33805181--33805215 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
33805171 TTGGCCTGCC
33805181 TATATTAATTTT
1 TATATTAATTTT
*
33805193 TATATTAATTAT
1 TATATTAATTTT
33805205 TATA-TAATTTT
1 TATATTAATTTT
33805216 AAAAATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:33805374 original size:30 final size:30
Alignment explanation
Indices: 33805340--33805402 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
33805330 ACTTAACAAG
33805340 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
33805370 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
33805400 CAA
1 CAA
33805403 TAAAATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:33807935 original size:29 final size:30
Alignment explanation
Indices: 33807888--33807951 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
33807878 TAAACTTAGG
* *
33807888 ATTTAGTTCATGTA-TTTTTATTTTTAAAA
1 ATTTAGTTCATGTACTTTTCATATTTAAAA
* *
33807917 ATTTAGTTCATTTACTTTTCATATTTCAAA
1 ATTTAGTTCATGTACTTTTCATATTTAAAA
33807947 ATTTA
1 ATTTA
33807952 AATCCAACTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (30 bp):
ATTTAGTTCATGTACTTTTCATATTTAAAA
Found at i:33809833 original size:46 final size:46
Alignment explanation
Indices: 33809764--33809867 Score: 147
Period size: 46 Copynumber: 2.3 Consensus size: 46
33809754 AACCTTATTG
* * *
33809764 TTGGGCTTTGAGGTAGTGTAAGCCCATCACA-TCTATGGGTCTAAAA
1 TTGGGCCTTGAGGTAATGAAAGCCCATCACATTC-ATGGGTCTAAAA
*
33809810 TTGGGCCTTGAGGTAATGAAAGCCCATCATATTCATGGGTCTAAAA
1 TTGGGCCTTGAGGTAATGAAAGCCCATCACATTCATGGGTCTAAAA
*
33809856 TTGGACCTTGAG
1 TTGGGCCTTGAG
33809868 ACTTACACCA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
46 50 0.96
47 2 0.04
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (46 bp):
TTGGGCCTTGAGGTAATGAAAGCCCATCACATTCATGGGTCTAAAA
Found at i:33810206 original size:20 final size:20
Alignment explanation
Indices: 33810181--33810218 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33810171 AACTTTAGCC
*
33810181 TAGTTTAATTGGTTTTTAAA
1 TAGTTTAATCGGTTTTTAAA
*
33810201 TAGTTTGATCGGTTTTTA
1 TAGTTTAATCGGTTTTTA
33810219 GCGGTTCAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.03, G:0.18, T:0.55
Consensus pattern (20 bp):
TAGTTTAATCGGTTTTTAAA
Found at i:33811245 original size:6 final size:7
Alignment explanation
Indices: 33811230--33811254 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33811220 CTAAAAAGAG
33811230 AAAATAA
1 AAAATAA
33811237 AAAATAA
1 AAAATAA
33811244 AAAATAA
1 AAAATAA
33811251 AAAA
1 AAAA
33811255 GCCTTTGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:33812506 original size:19 final size:20
Alignment explanation
Indices: 33812470--33812507 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
33812460 AACATAATCG
33812470 AGTAAGCATTATACATGCTT
1 AGTAAGCATTATACATGCTT
*
33812490 AGTAAGC-TTATAGATGCT
1 AGTAAGCATTATACATGCT
33812508 AAACCCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (20 bp):
AGTAAGCATTATACATGCTT
Found at i:33814145 original size:40 final size:40
Alignment explanation
Indices: 33814100--33814175 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
33814090 CACACTATGA
* *
33814100 GGGGATAAAATCGACCCACCCAGCCCTACACACCAAGTAT
1 GGGGATAAAATCAACCCACCCAACCCTACACACCAAGTAT
*
33814140 GGGGATAAAATCAACCCATCCAACCCTACACACCAA
1 GGGGATAAAATCAACCCACCCAACCCTACACACCAA
33814176 ATGGTACCGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.38, C:0.36, G:0.14, T:0.12
Consensus pattern (40 bp):
GGGGATAAAATCAACCCACCCAACCCTACACACCAAGTAT
Found at i:33820594 original size:35 final size:35
Alignment explanation
Indices: 33820555--33820625 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
33820545 CGTCGTGCCC
*
33820555 AGCGTCGTGCCCACGACTCCAGCCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
33820590 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
33820625 A
1 A
33820626 AAAGAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.28, C:0.34, G:0.24, T:0.14
Consensus pattern (35 bp):
AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
Found at i:33821402 original size:30 final size:31
Alignment explanation
Indices: 33821354--33821413 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
33821344 CATCAAACTT
*
33821354 TTTTTTTCGAATTATTTTTTTTTATTTTTTA
1 TTTTTTTCGAACTATTTTTTTTTATTTTTTA
* *
33821385 TTTTTTT-GAACTCTTTTTTTTTCTTTTTT
1 TTTTTTTCGAACTATTTTTTTTTATTTTTT
33821414 TAGAAATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.12, C:0.07, G:0.03, T:0.78
Consensus pattern (31 bp):
TTTTTTTCGAACTATTTTTTTTTATTTTTTA
Found at i:33821405 original size:24 final size:23
Alignment explanation
Indices: 33821373--33821454 Score: 60
Period size: 24 Copynumber: 3.4 Consensus size: 23
33821363 AATTATTTTT
33821373 TTTTATTTTTTATTTTTTTGAACTC
1 TTTT-TTTTTT-TTTTTTTGAACTC
* *
33821398 TTTTTTTTTCTTTTTTTAGAAAT-
1 TTTTTTTTT-TTTTTTTTGAACTC
* *
33821421 TATTTTTTTGTGCTTTTTTTG-TCTC
1 T-TTTTTTT-T-TTTTTTTTGAACTC
33821446 TTTTTTTTT
1 TTTTTTTTT
33821455 GTTGAACATG
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
23 2 0.04
24 30 0.65
25 14 0.30
ACGTcount: A:0.11, C:0.07, G:0.06, T:0.76
Consensus pattern (23 bp):
TTTTTTTTTTTTTTTTTGAACTC
Found at i:33828180 original size:35 final size:35
Alignment explanation
Indices: 33828141--33828211 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
33828131 CGTCGTGCCC
* *
33828141 AGCGTCGTGCCCACGACTCCAGCCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGTGAAAGAATA
33828176 AGCGTCGTGCCCACGACTCCAACCGTGAAAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGTGAAAGAATA
33828211 A
1 A
33828212 AAAGAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (35 bp):
AGCGTCGTGCCCACGACTCCAACCGTGAAAGAATA
Found at i:33829581 original size:50 final size:50
Alignment explanation
Indices: 33829516--33829860 Score: 282
Period size: 50 Copynumber: 6.9 Consensus size: 50
33829506 ACCGAAGCTC
* * * *
33829516 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * *
33829566 TCTGGTACACGTAGTAGACTGCACTTAGTACTACACACGTGACTTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * ** *
33829616 TCTGATACATGTAGTAACCTGCACTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAA
* * * * * * *
33829668 -CGGGTACGCATAGTAGCTTGCACTTAGTACTAAACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * ** * * * *
33829717 TCTGGTACACGTAATAGCTTAAACTTAGTACCACACACGTGACTTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * ** *
33829767 TCTGATACATGTAGTAGCCTGCACTAAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAA
* * *
33829819 -CGGGTACGCAG-AGTAGCCTACACTTAGTACTACACACGTGAC
1 TCTGGTACAC-GTAGTAGCCTGCACTTAGTACTACACACGTGAC
33829861 TCACAATGGA
Statistics
Matches: 227, Mismatches: 62, Indels: 12
0.75 0.21 0.04
Matches are distributed among these distances:
49 3 0.01
50 153 0.67
51 68 0.30
52 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
Found at i:33829720 original size:101 final size:101
Alignment explanation
Indices: 33829577--33829758 Score: 222
Period size: 101 Copynumber: 1.8 Consensus size: 101
33829567 CTGGTACACG
* * * * * * **
33829577 TAGTAGACTGCACTTAGTACTACACACGTGACTTAACCATCTGATACATGTAGTAACCTGCACTT
1 TAGTAGACTGCACTTAGTACTAAACACGCGACCTAACAATCTGATACACGTAATAACCTAAACTT
*
33829642 AGTACTACACACGTGATCGAAGTTAACGGGTACGCA
66 AGTACCACACACGTGATCGAAGTTAACGGGTACGCA
* * * * *
33829678 TAGTAG-CTTGCACTTAGTACTAAACATGCGACCTATCAATCTGGTACACGTAATAGCTTAAACT
1 TAGTAGAC-TGCACTTAGTACTAAACACGCGACCTAACAATCTGATACACGTAATAACCTAAACT
33829742 TAGTACCACACACGTGA
65 TAGTACCACACACGTGA
33829759 CTTAACCATC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
100 1 0.02
101 65 0.98
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (101 bp):
TAGTAGACTGCACTTAGTACTAAACACGCGACCTAACAATCTGATACACGTAATAACCTAAACTT
AGTACCACACACGTGATCGAAGTTAACGGGTACGCA
Found at i:33829782 original size:151 final size:151
Alignment explanation
Indices: 33829519--33829850 Score: 558
Period size: 151 Copynumber: 2.2 Consensus size: 151
33829509 GAAGCTCTCT
* *
33829519 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGA
1 GGTACGCATAGTAGCCTGCACTTAGTACTAAACATGCGACCTATCAATCTGGTACACGTAATAGA
** * *
33829584 CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACATGTAGTAACCTGCACTTAGTACTA
66 CTAAACTTAGTACCACACACGTGACTTAACCATCTGATACATGTAGTAACCTGCACTAAGTACTA
33829649 CACACGTGATCGAAGTTAACG
131 CACACGTGATCGAAGTTAACG
*
33829670 GGTACGCATAGTAGCTTGCACTTAGTACTAAACATGCGACCTATCAATCTGGTACACGTAATAG-
1 GGTACGCATAGTAGCCTGCACTTAGTACTAAACATGCGACCTATCAATCTGGTACACGTAATAGA
*
33829734 CTTAAACTTAGTACCACACACGTGACTTAACCATCTGATACATGTAGTAGCCTGCACTAAGTACT
66 C-TAAACTTAGTACCACACACGTGACTTAACCATCTGATACATGTAGTAACCTGCACTAAGTACT
33829799 ACACACGTGATCGAAGTTAACG
130 ACACACGTGATCGAAGTTAACG
* *
33829821 GGTACGCAGAGTAGCCTACACTTAGTACTA
1 GGTACGCATAGTAGCCTGCACTTAGTACTA
33829851 CACACGTGAC
Statistics
Matches: 169, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
150 1 0.01
151 168 0.99
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTAAACATGCGACCTATCAATCTGGTACACGTAATAGA
CTAAACTTAGTACCACACACGTGACTTAACCATCTGATACATGTAGTAACCTGCACTAAGTACTA
CACACGTGATCGAAGTTAACG
Done.