Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 207 of 284
Found at i:68909988 original size:52 final size:49
Alignment explanation
Indices: 68909912--68910009 Score: 151
Period size: 52 Copynumber: 1.9 Consensus size: 49
68909902 GTTGAGTGAG
68909912 AGAGAGAATGACACAGCCTAAATAAATCAACCAAATCATAGGTGCTCGC
1 AGAGAGAATGACACAGCCTAAATAAATCAACCAAATCATAGGTGCTCGC
* *
68909961 AGAGAGAATGACACCACAGCCTAAATAAATCAACCAATTCTTAGGTGCT
1 AGAGAGAATG--A-CACAGCCTAAATAAATCAACCAAATCATAGGTGCT
68910010 TGCATCCTCT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
49 10 0.23
51 1 0.02
52 33 0.75
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.18
Consensus pattern (49 bp):
AGAGAGAATGACACAGCCTAAATAAATCAACCAAATCATAGGTGCTCGC
Found at i:68910602 original size:13 final size:13
Alignment explanation
Indices: 68910584--68910609 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68910574 CAAATTCCGA
68910584 TCTCCTATAAGCT
1 TCTCCTATAAGCT
68910597 TCTCCTATAAGCT
1 TCTCCTATAAGCT
68910610 GGATACAAGT
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:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (13 bp):
TCTCCTATAAGCT
Found at i:68918328 original size:15 final size:15
Alignment explanation
Indices: 68918300--68918346 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
68918290 TTTTTGTCTG
*
68918300 AAAAATAAAAAAATT
1 AAAAATATAAAAATT
** *
68918315 AAATTTTTAAAAA-T
1 AAAAATATAAAAATT
68918329 AAAAATATAAAAATT
1 AAAAATATAAAAATT
68918344 AAA
1 AAA
68918347 CTCCAAATAT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAAATATAAAAATT
Found at i:68928418 original size:15 final size:17
Alignment explanation
Indices: 68928388--68928420 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
68928378 AATGTTGAAT
68928388 ATGTTTGAATTGTATAA
1 ATGTTTGAATTGTATAA
68928405 ATGTTT-AA-TGTATAA
1 ATGTTTGAATTGTATAA
68928420 A
1 A
68928421 ATCAATTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.45
Consensus pattern (17 bp):
ATGTTTGAATTGTATAA
Found at i:68928736 original size:25 final size:24
Alignment explanation
Indices: 68928708--68928760 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
68928698 TACAAATGCA
68928708 GCTCTTTATGAG-TGTCCTGATATAG
1 GCTCTTTATGAGCT-TCCTGATAT-G
*
68928733 GCTCTTTTTGAGCTTCCTGATATG
1 GCTCTTTATGAGCTTCCTGATATG
68928757 GCTC
1 GCTC
68928761 GCTTGAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 20 0.77
26 1 0.04
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.42
Consensus pattern (24 bp):
GCTCTTTATGAGCTTCCTGATATG
Found at i:68944013 original size:25 final size:25
Alignment explanation
Indices: 68943985--68944082 Score: 92
Period size: 25 Copynumber: 4.0 Consensus size: 25
68943975 TCTCGAGCCA
68943985 TATAATGGGAAGCTCATGTGAGCTG
1 TATAATGGGAAGCTCATGTGAGCTG
* ** *
68944010 TATAATGGGAAGCTTATCCGGGCTG
1 TATAATGGGAAGCTCATGTGAGCTG
* *
68944035 TATAACGGGAAGCTCATATGAGC--
1 TATAATGGGAAGCTCATGTGAGCTG
* * *
68944058 CATATTCAGGAAGCTCATGTGAGCT
1 TATAAT-GGGAAGCTCATGTGAGCT
68944083 AATAACGGGT
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
23 3 0.05
24 15 0.26
25 39 0.68
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (25 bp):
TATAATGGGAAGCTCATGTGAGCTG
Found at i:68946826 original size:21 final size:21
Alignment explanation
Indices: 68946800--68946848 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
68946790 AAATTTAATA
** *
68946800 AAAAATTTAAGATTTTCAAAT
1 AAAAATTTAAGAAATTAAAAT
68946821 AAAAA-TTAAGAAATTAAAAT
1 AAAAATTTAAGAAATTAAAAT
68946841 AAAAATTT
1 AAAAATTT
68946849 GTCTTTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (21 bp):
AAAAATTTAAGAAATTAAAAT
Found at i:68946829 original size:20 final size:20
Alignment explanation
Indices: 68946769--68946847 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 20
68946759 AATGTCAGGT
* *
68946769 GAAATAAAAATAATAAAATAA
1 GAAATTAAAATAA-AAATTAA
*
68946790 -AAATTTAATAA-AAAATTTAA
1 GAAA-TTAA-AATAAAAATTAA
** *
68946810 GATTTTCAAATAAAAATTAA
1 GAAATTAAAATAAAAATTAA
68946830 GAAATTAAAATAAAAATT
1 GAAATTAAAATAAAAATT
68946848 TGTCTTTATT
Statistics
Matches: 44, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
19 2 0.05
20 34 0.77
21 6 0.14
22 2 0.05
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (20 bp):
GAAATTAAAATAAAAATTAA
Found at i:68948869 original size:6 final size:6
Alignment explanation
Indices: 68948860--68948908 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
68948850 TAATATTAAT
* *
68948860 AATTTA AATTTA AATTTA AATATA AA--AA AATTTA AA-TTA AA-TTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
68948904 AATTT
1 AATTT
68948909 CTAAAAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 3 0.08
5 10 0.27
6 24 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (6 bp):
AATTTA
Found at i:68948893 original size:22 final size:20
Alignment explanation
Indices: 68948865--68948905 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
68948855 TTAATAATTT
68948865 AAATTTAAATTTAAATATAAAA
1 AAATTTAAA-TTAAAT-TAAAA
68948887 AAATTTAAATTAAATTAAA
1 AAATTTAAATTAAATTAAA
68948906 TTTCTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 6 0.32
22 9 0.47
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATTTAAATTAAATTAAAA
Found at i:68948906 original size:16 final size:16
Alignment explanation
Indices: 68948863--68948908 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
68948853 TATTAATAAT
68948863 TTAAATTTAAATTTAAA
1 TTAAA-TTAAATTTAAA
*
68948880 TATAAA-AAAATTTAAA
1 T-TAAATTAAATTTAAA
68948896 TTAAATTAAATTT
1 TTAAATTAAATTT
68948909 CTAAAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 4 0.16
16 16 0.64
17 1 0.04
18 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTAAATTAAATTTAAA
Found at i:68949875 original size:100 final size:100
Alignment explanation
Indices: 68949702--68949902 Score: 402
Period size: 100 Copynumber: 2.0 Consensus size: 100
68949692 GTGTTAGATT
68949702 GAATCGAATCAAATTAAGTGAAAATTTTTTGAGTTAATCGAGTTGATGAATTCTATCTTATCATC
1 GAATCGAATCAAATTAAGTGAAAATTTTTTGAGTTAATCGAGTTGATGAATTCTATCTTATCATC
68949767 CTAACTCGATTTGAAACTTTCTCGAATCGAGTCGA
66 CTAACTCGATTTGAAACTTTCTCGAATCGAGTCGA
68949802 GAATCGAATCAAATTAAGTGAAAATTTTTTGAGTTAATCGAGTTGATGAATTCTATCTTATCATC
1 GAATCGAATCAAATTAAGTGAAAATTTTTTGAGTTAATCGAGTTGATGAATTCTATCTTATCATC
68949867 CTAACTCGATTTGAAACTTTCTCGAATCGAGTCGA
66 CTAACTCGATTTGAAACTTTCTCGAATCGAGTCGA
68949902 G
1 G
68949903 TAAAATAAAT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (100 bp):
GAATCGAATCAAATTAAGTGAAAATTTTTTGAGTTAATCGAGTTGATGAATTCTATCTTATCATC
CTAACTCGATTTGAAACTTTCTCGAATCGAGTCGA
Found at i:68961828 original size:29 final size:29
Alignment explanation
Indices: 68961796--68961858 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
68961786 TTTGCTAAAT
* * *
68961796 AATTTGGACTAAATCCATTTTTTTTTATG
1 AATTTGGACCAAATCCATTTCTTTTTATA
* *
68961825 AATTTTGTCCAAATCCATTTCTTTTTATA
1 AATTTGGACCAAATCCATTTCTTTTTATA
68961854 AATTT
1 AATTT
68961859 AGTTTTTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.29, C:0.13, G:0.06, T:0.52
Consensus pattern (29 bp):
AATTTGGACCAAATCCATTTCTTTTTATA
Found at i:68963737 original size:14 final size:14
Alignment explanation
Indices: 68963718--68963749 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
68963708 AGTTCATTTA
68963718 GCCCAACCAAACTG
1 GCCCAACCAAACTG
68963732 GCCCAACCAAACTG
1 GCCCAACCAAACTG
68963746 GCCC
1 GCCC
68963750 GGTGATTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:68968864 original size:14 final size:14
Alignment explanation
Indices: 68968845--68968874 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
68968835 GTCATTTAGG
68968845 CCAACCAAACTGGC
1 CCAACCAAACTGGC
68968859 CCAACCAAACTGGC
1 CCAACCAAACTGGC
68968873 CC
1 CC
68968875 GGTGATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.47, G:0.13, T:0.07
Consensus pattern (14 bp):
CCAACCAAACTGGC
Found at i:68970547 original size:30 final size:30
Alignment explanation
Indices: 68970513--68970575 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
68970503 ACTTAACAAG
*
68970513 CAAATGCCTCTAAAATAATAA-TAAAATTAA
1 CAAATGCCTCTAAAAT-ATAACAAAAATTAA
* *
68970543 CAAATGTCTTTAAAATATAACAAAAATTAA
1 CAAATGCCTCTAAAATATAACAAAAATTAA
68970573 CAA
1 CAA
68970576 TAAATAAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 4 0.14
30 25 0.86
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGCCTCTAAAATATAACAAAAATTAA
Found at i:68973185 original size:44 final size:45
Alignment explanation
Indices: 68973135--68973227 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 45
68973125 CACTAGGATA
*
68973135 CCTATTGTTCAGCACTTCGGTGCCCACTGTCTAA-CACTTCCGTG
1 CCTATTGCTCAGCACTTCGGTGCCCACTGTCTAAGCACTTCCGTG
* * * * *
68973179 CCTATTGCTCAGCACTTTGGTGCCTATTGTTTAAGCACTTCGGTG
1 CCTATTGCTCAGCACTTCGGTGCCCACTGTCTAAGCACTTCCGTG
68973224 CCTA
1 CCTA
68973228 CTAGTGTGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 29 0.69
45 13 0.31
ACGTcount: A:0.16, C:0.30, G:0.19, T:0.34
Consensus pattern (45 bp):
CCTATTGCTCAGCACTTCGGTGCCCACTGTCTAAGCACTTCCGTG
Found at i:68973194 original size:22 final size:22
Alignment explanation
Indices: 68973135--68973227 Score: 98
Period size: 22 Copynumber: 4.2 Consensus size: 22
68973125 CACTAGGATA
68973135 CCTATTGTTCAGCACTTCGGTG
1 CCTATTGTTCAGCACTTCGGTG
* * * *
68973157 CCCACTG-TCTAACACTTCCGTG
1 CCTATTGTTC-AGCACTTCGGTG
* *
68973179 CCTATTGCTCAGCACTTTGGTG
1 CCTATTGTTCAGCACTTCGGTG
*
68973201 CCTATTGTTTAAGCACTTCGGTG
1 CCTATTG-TTCAGCACTTCGGTG
68973224 CCTA
1 CCTA
68973228 CTAGTGTGGT
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
21 2 0.04
22 36 0.64
23 18 0.32
ACGTcount: A:0.16, C:0.30, G:0.19, T:0.34
Consensus pattern (22 bp):
CCTATTGTTCAGCACTTCGGTG
Found at i:68977385 original size:19 final size:21
Alignment explanation
Indices: 68977356--68977403 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 21
68977346 TTACTTTTAT
* *
68977356 CAATTTAAAAATTTTTAA-AA
1 CAATTTTAAAATTTTGAATAA
68977376 -AATTTTAAAATTTTGAATAA
1 CAATTTTAAAATTTTGAATAA
68977396 CAATTTTA
1 CAATTTTA
68977404 CATTAGGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 15 0.62
20 2 0.08
21 7 0.29
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (21 bp):
CAATTTTAAAATTTTGAATAA
Found at i:68985759 original size:26 final size:25
Alignment explanation
Indices: 68985729--68985777 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
68985719 TTACAAAAAA
68985729 AAATTTAAAATATTTATAAAAATTTT
1 AAATTTAAAATATTTA-AAAAATTTT
* * *
68985755 AAATTTCATATTTTTAAAAAATT
1 AAATTTAAAATATTTAAAAAATT
68985778 ATAATTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
AAATTTAAAATATTTAAAAAATTTT
Found at i:68986429 original size:42 final size:40
Alignment explanation
Indices: 68986373--68986469 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
68986363 TACAAATAAT
* *
68986373 TTTATTA-ATTATTAAAAACACATTTAAAAATGTATATTTCA
1 TTTATTACAATATTAAAAA-ACAGTT-AAAATGTATATTTCA
* ** *
68986414 TTTATTACAATATTAACAATGAGTTAAAATGTGTATTTCA
1 TTTATTACAATATTAAAAAACAGTTAAAATGTATATTTCA
68986454 TTTATTACAATATTAA
1 TTTATTACAATATTAA
68986470 CAATGAGTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
40 30 0.61
41 10 0.20
42 9 0.18
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.44
Consensus pattern (40 bp):
TTTATTACAATATTAAAAAACAGTTAAAATGTATATTTCA
Found at i:68986452 original size:40 final size:40
Alignment explanation
Indices: 68986399--68986479 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
68986389 AACACATTTA
68986399 AAAATGTATATTTCATTTATTACAATATTAACAATGAGTT
1 AAAATGTATATTTCATTTATTACAATATTAACAATGAGTT
*
68986439 AAAATGTGTATTTCATTTATTACAATATTAACAATGAGTT
1 AAAATGTATATTTCATTTATTACAATATTAACAATGAGTT
68986479 A
1 A
68986480 GCATAAATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (40 bp):
AAAATGTATATTTCATTTATTACAATATTAACAATGAGTT
Found at i:68987597 original size:16 final size:17
Alignment explanation
Indices: 68987576--68987613 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
68987566 CAGTTCGTAT
68987576 TTTTAG-AAAACCATTG
1 TTTTAGAAAAACCATTG
68987592 TTTTAGTAAAAACCATTG
1 TTTTAG-AAAAACCATTG
68987610 TTTT
1 TTTT
68987614 TAGATATCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
18 14 0.70
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (17 bp):
TTTTAGAAAAACCATTG
Found at i:68988384 original size:18 final size:18
Alignment explanation
Indices: 68988361--68988397 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
68988351 TTTTTAGAAA
*
68988361 TATGGGCCTACATGCCTG
1 TATGGGCCCACATGCCTG
68988379 TATGGGCCCACATGCCTG
1 TATGGGCCCACATGCCTG
68988397 T
1 T
68988398 GTAGCTCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.30, G:0.27, T:0.27
Consensus pattern (18 bp):
TATGGGCCCACATGCCTG
Found at i:68989554 original size:34 final size:34
Alignment explanation
Indices: 68989511--68989579 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
68989501 GTACGAGATG
68989511 TTACTAAGATAGATGCAAGAAAAATACAACTTAA
1 TTACTAAGATAGATGCAAGAAAAATACAACTTAA
*
68989545 TTACTAAGATAGATGCAAGACAAATACAACTTAA
1 TTACTAAGATAGATGCAAGAAAAATACAACTTAA
68989579 T
1 T
68989580 ATCTTAAGAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.51, C:0.13, G:0.12, T:0.25
Consensus pattern (34 bp):
TTACTAAGATAGATGCAAGAAAAATACAACTTAA
Found at i:68989683 original size:19 final size:18
Alignment explanation
Indices: 68989635--68989672 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
68989625 TCAAGGTTAA
68989635 GAGAAATTTAAAACTTTG
1 GAGAAATTTAAAACTTTG
68989653 GAGAAATTTAAAACTTTG
1 GAGAAATTTAAAACTTTG
68989671 GA
1 GA
68989673 ACATTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (18 bp):
GAGAAATTTAAAACTTTG
Found at i:68989982 original size:26 final size:25
Alignment explanation
Indices: 68989953--68990008 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
68989943 TCAGATTGAG
* *
68989953 AAATTCAATTTAAATAATAAAATTTA
1 AAATTAAATTT-AATAATAAAATATA
*
68989979 AAATTTAAATTTAATTATAAAATATA
1 AAA-TTAAATTTAATAATAAAATATA
68990005 AAAT
1 AAAT
68990009 AATTATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 1 0.04
26 18 0.69
27 7 0.27
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (25 bp):
AAATTAAATTTAATAATAAAATATA
Found at i:69019718 original size:21 final size:21
Alignment explanation
Indices: 69019694--69019741 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
69019684 AGTGAAGAGG
* *
69019694 GGCACACGATCGTGTGGCTGA
1 GGCACACGACCGTGTGACTGA
* *
69019715 GGCACATGCCCGTGTGACTGA
1 GGCACACGACCGTGTGACTGA
69019736 GGCACA
1 GGCACA
69019742 TGCTTGTGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.21, C:0.27, G:0.35, T:0.17
Consensus pattern (21 bp):
GGCACACGACCGTGTGACTGA
Found at i:69019742 original size:21 final size:21
Alignment explanation
Indices: 69019704--69019744 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
69019694 GGCACACGAT
*
69019704 CGTGTGGCTGAGGCACATGCC
1 CGTGTGACTGAGGCACATGCC
69019725 CGTGTGACTGAGGCACATGC
1 CGTGTGACTGAGGCACATGC
69019745 TTGTGAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.27, G:0.37, T:0.20
Consensus pattern (21 bp):
CGTGTGACTGAGGCACATGCC
Found at i:69019870 original size:21 final size:21
Alignment explanation
Indices: 69019845--69019900 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
69019835 GTGAGGGTCT
**
69019845 CACACGCTCGTGTGTCCATCA
1 CACACGCTCGTGTGTCCAAAA
*
69019866 GACACGAC-CGTGTGTCCAAAA
1 CACACG-CTCGTGTGTCCAAAA
69019887 CACACGCTCGTGTG
1 CACACGCTCGTGTG
69019901 GGATCCCTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.20
Consensus pattern (21 bp):
CACACGCTCGTGTGTCCAAAA
Found at i:69026489 original size:41 final size:41
Alignment explanation
Indices: 69026437--69026537 Score: 186
Period size: 41 Copynumber: 2.5 Consensus size: 41
69026427 GTTTTAGAAA
69026437 TTTT-AAAATTTTAAAATTTATTTATATATATTTTAGATTT
1 TTTTAAAAATTTTAAAATTTATTTATATATATTTTAGATTT
69026477 TTTTAAAAATTTTAAAATTTATTTATATATATTTTAGATTT
1 TTTTAAAAATTTTAAAATTTATTTATATATATTTTAGATTT
*
69026518 TTTTAAAAATTTTATAATTT
1 TTTTAAAAATTTTAAAATTT
69026538 TTAAAAATAT
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
40 4 0.07
41 55 0.93
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (41 bp):
TTTTAAAAATTTTAAAATTTATTTATATATATTTTAGATTT
Found at i:69026561 original size:25 final size:25
Alignment explanation
Indices: 69026524--69026573 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
69026514 ATTTTTTTAA
69026524 AAATTTTATAA-TTTTTAAAAATAT
1 AAATTTTATAATTTTTTAAAAATAT
*
69026548 AAATATTTATAATTTTTTATAAATAT
1 AAAT-TTTATAATTTTTTAAAAATAT
69026574 TTAGAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 7 0.30
26 12 0.52
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
AAATTTTATAATTTTTTAAAAATAT
Found at i:69026574 original size:65 final size:64
Alignment explanation
Indices: 69026483--69026608 Score: 150
Period size: 64 Copynumber: 2.0 Consensus size: 64
69026473 ATTTTTTTAA
* *
69026483 AAATTTTAAAATTTATTTATATATATTTTAGATTTTTTTAAAAA-T-TTTATAATTTTTAAAAAT
1 AAATTTTAAAATTTATTTATAAATA-TTTAGA--ATTTTAAAAATTATTTATAATTTTTAAAAAT
69026546 AT
63 AT
* * *
69026548 AAATATTTATAATTT-TTTATAAATATTTAGAATTTTAAAAATTATTTTTAATTTTTGAAAA
1 AAAT-TTTAAAATTTATTTATAAATATTTAGAATTTTAAAAATTATTTATAATTTTTAAAAA
69026609 CTATTTTGAT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
62 9 0.17
63 1 0.02
64 21 0.40
65 13 0.25
66 9 0.17
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (64 bp):
AAATTTTAAAATTTATTTATAAATATTTAGAATTTTAAAAATTATTTATAATTTTTAAAAATAT
Found at i:69026623 original size:20 final size:20
Alignment explanation
Indices: 69026561--69026622 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
69026551 TATTTATAAT
* *
69026561 TTTTTATAAA-TATTTAGAA
1 TTTTTAAAAACTATTTTGAA
* *
69026580 -TTTTAAAAATTATTTTTAA
1 TTTTTAAAAACTATTTTGAA
*
69026599 TTTTTGAAAACTATTTTG-A
1 TTTTTAAAAACTATTTTGAA
69026618 TTTTT
1 TTTTT
69026623 TTGTAATTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 8 0.23
19 13 0.37
20 14 0.40
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTTTAAAAACTATTTTGAA
Found at i:69034537 original size:21 final size:21
Alignment explanation
Indices: 69034512--69034555 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
69034502 ATTGGGCTGT
* *
69034512 TACACTCCACCTGTTTTGGAG
1 TACACTCCACCTGCTGTGGAG
69034533 TACACTCCACCTGCTGTGGAG
1 TACACTCCACCTGCTGTGGAG
69034554 TA
1 TA
69034556 TTGCTCGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (21 bp):
TACACTCCACCTGCTGTGGAG
Found at i:69040156 original size:31 final size:32
Alignment explanation
Indices: 69040121--69040190 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 32
69040111 CATTAAATCT
* *
69040121 AACCAAAAATAGCAAATATAGCATG-AAATGC
1 AACCAAAAACAGCAAATATAGCATGAAAATAC
*
69040152 AACC--AAACAGCAAATTTAGCATGCAAAATAC
1 AACCAAAAACAGCAAATATAGCATG-AAAATAC
69040183 AACCAAAA
1 AACCAAAA
69040191 CATTAAATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
29 17 0.53
31 13 0.41
33 2 0.06
ACGTcount: A:0.56, C:0.20, G:0.10, T:0.14
Consensus pattern (32 bp):
AACCAAAAACAGCAAATATAGCATGAAAATAC
Found at i:69040166 original size:29 final size:30
Alignment explanation
Indices: 69040131--69040189 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
69040121 AACCAAAAAT
*
69040131 AGCAAATATAGCATG-AAATGCAACCAAAC
1 AGCAAATATAGCATGAAAATACAACCAAAC
*
69040160 AGCAAATTTAGCATGCAAAATACAACCAAA
1 AGCAAATATAGCATG-AAAATACAACCAAA
69040190 ACATTAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 14 0.54
31 12 0.46
ACGTcount: A:0.53, C:0.20, G:0.12, T:0.15
Consensus pattern (30 bp):
AGCAAATATAGCATGAAAATACAACCAAAC
Found at i:69040437 original size:21 final size:20
Alignment explanation
Indices: 69040407--69040449 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
69040397 ACTTTCTGTT
*
69040407 CTGCTCTGCCTCTCTCGCTG
1 CTGCTCTGCCTCCCTCGCTG
*
69040427 CTGCTGCTGCCTCCCTCTCTG
1 CTGCT-CTGCCTCCCTCGCTG
69040448 CT
1 CT
69040450 ACTTCCGCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.00, C:0.47, G:0.19, T:0.35
Consensus pattern (20 bp):
CTGCTCTGCCTCCCTCGCTG
Found at i:69040889 original size:13 final size:14
Alignment explanation
Indices: 69040863--69040891 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
69040853 ACTAACGACG
69040863 AATTAAACCATTAT
1 AATTAAACCATTAT
69040877 AATTAAA-CATTAT
1 AATTAAACCATTAT
69040890 AA
1 AA
69040892 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:69041202 original size:13 final size:14
Alignment explanation
Indices: 69041176--69041204 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
69041166 ACTAACGACG
69041176 AATTAAACCATTAT
1 AATTAAACCATTAT
69041190 AATTAAA-CATTAT
1 AATTAAACCATTAT
69041203 AA
1 AA
69041205 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:69041367 original size:313 final size:313
Alignment explanation
Indices: 69040799--69041425 Score: 1254
Period size: 313 Copynumber: 2.0 Consensus size: 313
69040789 CAAAAGTTAG
69040799 AAACGAAATATATAATAAAAAGGAATGCAACATAACTTAACATTATTTAAAAGTACTAACGACGA
1 AAACGAAATATATAATAAAAAGGAATGCAACATAACTTAACATTATTTAAAAGTACTAACGACGA
69040864 ATTAAACCATTATAATTAAACATTATAAATATTTATAATAAATCAAATTTTATTAAATAAATATA
66 ATTAAACCATTATAATTAAACATTATAAATATTTATAATAAATCAAATTTTATTAAATAAATATA
69040929 CCATAATTTCTCCAGCTTCGGATGTCATAGGAGATCCATCTTTCTTCCTATACGTAATCTCAAAA
131 CCATAATTTCTCCAGCTTCGGATGTCATAGGAGATCCATCTTTCTTCCTATACGTAATCTCAAAA
69040994 AGCTGAAGGCATCCAACTTTTTGACCGGACGAGACTTCCTACAATATAGTATTAAAAATATTATT
196 AGCTGAAGGCATCCAACTTTTTGACCGGACGAGACTTCCTACAATATAGTATTAAAAATATTATT
69041059 TAATAGTAGAAAGTCATTAATATTTGACAGAATTAATAAATTCATAATACATC
261 TAATAGTAGAAAGTCATTAATATTTGACAGAATTAATAAATTCATAATACATC
69041112 AAACGAAATATATAATAAAAAGGAATGCAACATAACTTAACATTATTTAAAAGTACTAACGACGA
1 AAACGAAATATATAATAAAAAGGAATGCAACATAACTTAACATTATTTAAAAGTACTAACGACGA
69041177 ATTAAACCATTATAATTAAACATTATAAATATTTATAATAAATCAAATTTTATTAAATAAATATA
66 ATTAAACCATTATAATTAAACATTATAAATATTTATAATAAATCAAATTTTATTAAATAAATATA
69041242 CCATAATTTCTCCAGCTTCGGATGTCATAGGAGATCCATCTTTCTTCCTATACGTAATCTCAAAA
131 CCATAATTTCTCCAGCTTCGGATGTCATAGGAGATCCATCTTTCTTCCTATACGTAATCTCAAAA
69041307 AGCTGAAGGCATCCAACTTTTTGACCGGACGAGACTTCCTACAATATAGTATTAAAAATATTATT
196 AGCTGAAGGCATCCAACTTTTTGACCGGACGAGACTTCCTACAATATAGTATTAAAAATATTATT
69041372 TAATAGTAGAAAGTCATTAATATTTGACAGAATTAATAAATTCATAATACATC
261 TAATAGTAGAAAGTCATTAATATTTGACAGAATTAATAAATTCATAATACATC
69041425 A
1 A
69041426 GCCTCAGCTA
Statistics
Matches: 314, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
313 314 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.32
Consensus pattern (313 bp):
AAACGAAATATATAATAAAAAGGAATGCAACATAACTTAACATTATTTAAAAGTACTAACGACGA
ATTAAACCATTATAATTAAACATTATAAATATTTATAATAAATCAAATTTTATTAAATAAATATA
CCATAATTTCTCCAGCTTCGGATGTCATAGGAGATCCATCTTTCTTCCTATACGTAATCTCAAAA
AGCTGAAGGCATCCAACTTTTTGACCGGACGAGACTTCCTACAATATAGTATTAAAAATATTATT
TAATAGTAGAAAGTCATTAATATTTGACAGAATTAATAAATTCATAATACATC
Found at i:69046284 original size:9 final size:9
Alignment explanation
Indices: 69046270--69046407 Score: 74
Period size: 9 Copynumber: 15.3 Consensus size: 9
69046260 TAACTCTAAT
69046270 TAAGTTATG
1 TAAGTTATG
69046279 TAAGTTATG
1 TAAGTTATG
* * *
69046288 ATATGATATA
1 -TAAGTTATG
* *
69046298 T-ATTTATA
1 TAAGTTATG
69046306 T-A-TTATG
1 TAAGTTATG
69046313 TAAGTTATG
1 TAAGTTATG
*
69046322 TAAATTATG
1 TAAGTTATG
69046331 TAAGTTATCCG
1 TAAGTTAT--G
69046342 -AA-TTATG
1 TAAGTTATG
*
69046349 TAAATTATG
1 TAAGTTATG
*
69046358 TAAGATATGATA
1 TAAG-T-T-ATG
*
69046370 TATATTTATG
1 TA-AGTTATG
69046380 T-A-TTATG
1 TAAGTTATG
69046387 TAAGTTATG
1 TAAGTTATG
*
69046396 TAAATTATG
1 TAAGTTATG
69046405 TAA
1 TAA
69046408 AATATGATAT
Statistics
Matches: 102, Mismatches: 14, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
7 12 0.12
8 11 0.11
9 58 0.57
10 12 0.12
11 3 0.03
12 5 0.05
13 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:69046330 original size:18 final size:18
Alignment explanation
Indices: 69046307--69046407 Score: 98
Period size: 18 Copynumber: 5.5 Consensus size: 18
69046297 ATATTTATAT
69046307 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
***
69046325 ATTATGTAAGTTATCCGA
1 ATTATGTAAGTTATGTAA
*
69046343 ATTATGTAAATTATGTAA
1 ATTATGTAAGTTATGTAA
* *
69046361 GATATGATATATATTTATGT--
1 -AT-T-ATGTA-AGTTATGTAA
69046381 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
69046399 ATTATGTAA
1 ATTATGTAA
69046408 AATATGATAT
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
16 7 0.11
17 4 0.06
18 39 0.59
19 4 0.06
20 1 0.02
21 4 0.06
22 7 0.11
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.45
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:69046393 original size:56 final size:55
Alignment explanation
Indices: 69046325--69046431 Score: 144
Period size: 56 Copynumber: 1.9 Consensus size: 55
69046315 AGTTATGTAA
* *
69046325 ATTATGTAAGTTATCCGAATTATGTAAATTATG-TAAGATATGATATATATTTATGT
1 ATTATGTAAGTTATCCAAATTATGTAAAATATGAT-AGATAT-ATATATATTTATGT
** *
69046381 ATTATGTAAGTTATGTAAATTATGTAAAATATGATATATATATATATATTT
1 ATTATGTAAGTTATCCAAATTATGTAAAATATGATAGATATATATATATTT
69046432 TTGTTGATGG
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
55 10 0.22
56 34 0.76
57 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (55 bp):
ATTATGTAAGTTATCCAAATTATGTAAAATATGATAGATATATATATATTTATGT
Found at i:69046408 original size:9 final size:9
Alignment explanation
Indices: 69046307--69046413 Score: 85
Period size: 9 Copynumber: 11.7 Consensus size: 9
69046297 ATATTTATAT
69046307 ATTATGTAA
1 ATTATGTAA
*
69046316 GTTATGTAA
1 ATTATGTAA
69046325 ATTATGTAA
1 ATTATGTAA
* ***
69046334 GTTATCCGA
1 ATTATGTAA
69046343 ATTATGTAA
1 ATTATGTAA
69046352 ATTATGTAA
1 ATTATGTAA
69046361 GA-TATGATATA
1 -ATTATG-TA-A
69046372 TATTTATGT--
1 -A-TTATGTAA
69046381 ATTATGTAA
1 ATTATGTAA
*
69046390 GTTATGTAA
1 ATTATGTAA
69046399 ATTATGTAA
1 ATTATGTAA
*
69046408 AATATG
1 ATTATG
69046414 ATATATATAT
Statistics
Matches: 77, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
7 6 0.08
8 1 0.01
9 60 0.78
10 3 0.04
11 2 0.03
12 1 0.01
13 4 0.05
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (9 bp):
ATTATGTAA
Found at i:69046890 original size:5 final size:5
Alignment explanation
Indices: 69046880--69046909 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
69046870 TTTTCGTGAT
69046880 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
69046910 CTTTTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:69047108 original size:9 final size:9
Alignment explanation
Indices: 69047094--69047231 Score: 65
Period size: 9 Copynumber: 15.3 Consensus size: 9
69047084 TAACTCTAAT
69047094 TAAGTTATG
1 TAAGTTATG
69047103 TAAGTTATG
1 TAAGTTATG
* * *
69047112 ATATGATATA
1 -TAAGTTATG
* *
69047122 T-ATTTATA
1 TAAGTTATG
69047130 T-A-TTATG
1 TAAGTTATG
69047137 TAAGTTATG
1 TAAGTTATG
*
69047146 TAAATTATG
1 TAAGTTATG
69047155 TAAGTTATCCG
1 TAAGTTAT--G
69047166 -AA-TTATG
1 TAAGTTATG
* *
69047173 TAAATTATT
1 TAAGTTATG
*
69047182 TAAGATGTGATA
1 TAAG-T-T-ATG
*
69047194 TATATTTATG
1 TA-AGTTATG
69047204 T-A-TTATG
1 TAAGTTATG
69047211 TAAGTTATG
1 TAAGTTATG
*
69047220 TAAATTATG
1 TAAGTTATG
69047229 TAA
1 TAA
69047232 AATATGATAT
Statistics
Matches: 101, Mismatches: 15, Indels: 26
0.71 0.11 0.18
Matches are distributed among these distances:
7 12 0.12
8 11 0.11
9 57 0.56
10 12 0.12
11 3 0.03
12 5 0.05
13 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:69047154 original size:18 final size:18
Alignment explanation
Indices: 69047131--69047231 Score: 89
Period size: 18 Copynumber: 5.5 Consensus size: 18
69047121 ATATTTATAT
69047131 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
***
69047149 ATTATGTAAGTTATCCGA
1 ATTATGTAAGTTATGTAA
* *
69047167 ATTATGTAAATTATTTAA
1 ATTATGTAAGTTATGTAA
* *
69047185 GATGTGATATATATTTATGT--
1 -AT-T-ATGTA-AGTTATGTAA
69047205 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
69047223 ATTATGTAA
1 ATTATGTAA
69047232 AATATGATAT
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
16 7 0.11
17 4 0.06
18 39 0.60
19 4 0.06
20 1 0.02
21 4 0.06
22 6 0.09
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.46
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:69047232 original size:9 final size:9
Alignment explanation
Indices: 69047131--69047237 Score: 74
Period size: 9 Copynumber: 11.7 Consensus size: 9
69047121 ATATTTATAT
69047131 ATTATGTAA
1 ATTATGTAA
*
69047140 GTTATGTAA
1 ATTATGTAA
69047149 ATTATGTAA
1 ATTATGTAA
* ***
69047158 GTTATCCGA
1 ATTATGTAA
69047167 ATTATGTAA
1 ATTATGTAA
*
69047176 ATTATTTAA
1 ATTATGTAA
*
69047185 GATGTGATATATA
1 -AT-T-ATGTA-A
*
69047198 TTTATGT--
1 ATTATGTAA
69047205 ATTATGTAA
1 ATTATGTAA
*
69047214 GTTATGTAA
1 ATTATGTAA
69047223 ATTATGTAA
1 ATTATGTAA
*
69047232 AATATG
1 ATTATG
69047238 ATATATATAT
Statistics
Matches: 74, Mismatches: 18, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
7 6 0.08
9 55 0.74
10 5 0.07
11 2 0.03
12 5 0.07
13 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.45
Consensus pattern (9 bp):
ATTATGTAA
Found at i:69047610 original size:5 final size:5
Alignment explanation
Indices: 69047600--69047624 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
69047590 TTTTCGTGAT
69047600 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
69047625 CTTTAAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:69047706 original size:5 final size:5
Alignment explanation
Indices: 69047696--69047725 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
69047686 TTTTCGTGAT
69047696 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
69047726 CTTTTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:69047740 original size:101 final size:101
Alignment explanation
Indices: 69047442--69047783 Score: 518
Period size: 101 Copynumber: 3.4 Consensus size: 101
69047432 ATGAGTTATT
* *
69047442 TTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAA-TATTCTTCATGATTAAAATAAAA
1 TTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAAGT-TTTTTCGTGATTAAAATAAAA
69047506 TAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAA
65 TAAAAT-AAA-A--TAAAATAAAACTTTAAATACAATTTAA
*
69047547 TTTAATTAGGTCATTTAAAAATAAAATAAAAGTAGACAAAAG-TTTTTCGTGA-T----TAAAAT
1 TTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAAGTTTTTTCGTGATTAAAATAAAAT
69047606 AAAATAAAATAAAATAAAACTTTAAATACAATTTAA
66 AAAATAAAATAAAATAAAACTTTAAATACAATTTAA
*
69047642 TTTAATTAGGTAATTTAAAAGTAAAATAAAAGTAGACAAAAGTTTTTTCGTGATTAAAATAAAAT
1 TTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAAGTTTTTTCGTGATTAAAATAAAAT
* **
69047707 AAAATAAAATAAAATAAAACTTTTAATTTAATTTAA
66 AAAATAAAATAAAATAAAACTTTAAATACAATTTAA
*
69047743 TTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGATAAAA
1 TTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAA
69047784 TATTTTAAAC
Statistics
Matches: 220, Mismatches: 10, Indels: 18
0.89 0.04 0.07
Matches are distributed among these distances:
95 67 0.30
96 10 0.05
97 2 0.01
98 3 0.01
99 11 0.05
101 78 0.35
103 1 0.00
104 8 0.04
105 40 0.18
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.34
Consensus pattern (101 bp):
TTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAAGTTTTTTCGTGATTAAAATAAAAT
AAAATAAAATAAAATAAAACTTTAAATACAATTTAA
Found at i:69047866 original size:97 final size:100
Alignment explanation
Indices: 69047748--69047935 Score: 244
Period size: 104 Copynumber: 1.9 Consensus size: 100
69047738 TTTAATTTAA
* *
69047748 TTAGGTAATTTAAAAATAAAATAAAAGT-AGATA-AAA-T-AT-TTTAAACATTGTTAAGTCTTT
1 TTAGGTAATTTAAAAATAAAATAAAA-TAAAATATAAATTAATAATTAAAC-TTGTTAAGTCTTT
*
69047808 CTTTTAATTTGTATTTATTAATTTGTTAATTTAAAAG
64 CTTTTAATTTGCATTTATTAATTTGTTAATTTAAAAG
69047845 TTAGGTAATTT-AAAATAAAAATAAAATAAAATATTTAAATTAATGACATTAAACTTGTTAAGTC
1 TTAGGTAATTTAAAAAT-AAAATAAAATAAAATA--TAAATTAAT-A-ATTAAACTTGTTAAGTC
69047909 TTTCTTTTAATTTGCATTTATTAATTT
61 TTTCTTTTAATTTGCATTTATTAATTT
69047936 AAGTAAACAT
Statistics
Matches: 78, Mismatches: 3, Indels: 13
0.83 0.03 0.14
Matches are distributed among these distances:
96 6 0.08
97 24 0.31
100 3 0.04
101 1 0.01
102 2 0.03
104 36 0.46
105 6 0.08
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (100 bp):
TTAGGTAATTTAAAAATAAAATAAAATAAAATATAAATTAATAATTAAACTTGTTAAGTCTTTCT
TTTAATTTGCATTTATTAATTTGTTAATTTAAAAG
Found at i:69048413 original size:5 final size:5
Alignment explanation
Indices: 69048403--69048427 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
69048393 TTTTCCTGAT
69048403 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
69048428 CTTTAAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:69048437 original size:803 final size:803
Alignment explanation
Indices: 69047457--69049067 Score: 3188
Period size: 803 Copynumber: 2.0 Consensus size: 803
69047447 TTAGGTAATT
69047457 TAAAAATAAAATAAAAGTAGACAAAATATTCTTCATGATTAAAATAAAATAAAATAAAATATTTA
1 TAAAAATAAAATAAAAGTAGACAAAATATTCTTCATGATTAAAATAAAATAAAATAAAATATTTA
69047522 AAATAAAACTTTAAATACAATTTAATTTAATTAGGTCATTTAAAAATAAAATAAAAGTAGACAAA
66 AAATAAAACTTTAAATACAATTTAATTTAATTAGGTCATTTAAAAATAAAATAAAAGTAGACAAA
*
69047587 AGTTTTTCGTGATTAAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGG
131 AGTTTTTCCTGATTAAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGG
69047652 TAATTTAAAAGTAAAATAAAAGTAGACAAAAGTTTTTTCGTGATTAAAATAAAATAAAATAAAAT
196 TAATTTAAAAGTAAAATAAAAGTAGACAAAAGTTTTTTCGTGATTAAAATAAAATAAAATAAAAT
69047717 AAAATAAAACTTTTAATTTAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGATAA
261 AAAATAAAACTTTTAATTTAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGATAA
69047782 AATATTTTAAACATTGTTAAGTCTTTCTTTTAATTTGTATTTATTAATTTGTTAATTTAAAAGTT
326 AATATTTTAAACATTGTTAAGTCTTTCTTTTAATTTGTATTTATTAATTTGTTAATTTAAAAGTT
69047847 AGGTAATTT-AAAATAAAAATAAAATAAAATATTTAAATTAATGACATTAAACTTGTTAAGTCTT
391 AGGTAATTTAAAAAT-AAAATAAAATAAAATATTTAAATTAATGACATTAAACTTGTTAAGTCTT
69047911 TCTTTTAATTTGCATTTATTAATTTAAGTAAACATTGTTCTTTTGGTAACAGCAAGTTTATGCTT
455 TCTTTTAATTTGCATTTATTAATTTAAGTAAACATTGTTCTTTTGGTAACAGCAAGTTTATGCTT
69047976 AAAAGCTATGATTTATTTTGAATAAAAAGTTTAACTTAAATGATAAAAGAATGATAATATTTGTG
520 AAAAGCTATGATTTATTTTGAATAAAAAGTTTAACTTAAATGATAAAAGAATGATAATATTTGTG
69048041 ATAAAACGGACGAGAATATTTCAATAATATTAATAATTTAATAAAAATCGTGATAGAAATATAGA
585 ATAAAACGGACGAGAATATTTCAATAATATTAATAATTTAATAAAAATCGTGATAGAAATATAGA
69048106 AATATTAAATCACAAATTAAAAGGTTGCAAATTGAGCAGAAATGATCCCTTTTACAGAATTAATC
650 AATATTAAATCACAAATTAAAAGGTTGCAAATTGAGCAGAAATGATCCCTTTTACAGAATTAATC
69048171 TCAAGGCCGATAGCATAACAGCATAACAAGTTCTATACTTGATCACTTGTAAATTTGGGTATTAT
715 TCAAGGCCGATAGCATAACAGCATAACAAGTTCTATACTTGATCACTTGTAAATTTGGGTATTAT
69048236 TATTTATATCTATGTATTGTAGAA
780 TATTTATATCTATGTATTGTAGAA
69048260 TAAAAATAAAATAAAAGTAGACAAAATATTCTTCATGATTAAAATAAAATAAAATAAAATATTTA
1 TAAAAATAAAATAAAAGTAGACAAAATATTCTTCATGATTAAAATAAAATAAAATAAAATATTTA
69048325 AAATAAAACTTTAAATACAATTTAATTTAATTAGGTCATTTAAAAATAAAATAAAAGTAGACAAA
66 AAATAAAACTTTAAATACAATTTAATTTAATTAGGTCATTTAAAAATAAAATAAAAGTAGACAAA
69048390 AGTTTTTCCTGATTAAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGG
131 AGTTTTTCCTGATTAAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGG
69048455 TAATTTAAAAGTAAAATAAAAGTAGACAAAAGTTTTTTCGTGATTAAAATAAAATAAAATAAAAT
196 TAATTTAAAAGTAAAATAAAAGTAGACAAAAGTTTTTTCGTGATTAAAATAAAATAAAATAAAAT
69048520 AAAATAAAACTTTTAATTTAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGATAA
261 AAAATAAAACTTTTAATTTAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGATAA
69048585 AATATTTTAAACATTGTTAAGTCTTTCTTTTAATTTGTATTTATTAATTTGTTAATTTAAAAGTT
326 AATATTTTAAACATTGTTAAGTCTTTCTTTTAATTTGTATTTATTAATTTGTTAATTTAAAAGTT
69048650 AGGTAATTTAAAAATAAAATAAAATAAAATATTTAAATTAATGACATTAAACTTGTTAAGTCTTT
391 AGGTAATTTAAAAATAAAATAAAATAAAATATTTAAATTAATGACATTAAACTTGTTAAGTCTTT
69048715 CTTTTAATTTGCATTTATTAATTTAAGTAAACATTGTTCTTTTGGTAACAGCAAGTTTATGCTTA
456 CTTTTAATTTGCATTTATTAATTTAAGTAAACATTGTTCTTTTGGTAACAGCAAGTTTATGCTTA
69048780 AAAGCTATGATTTATTTTGAATAAAAAGTTTAACTTAAATGATAAAAGAATGATAATATTTGTGA
521 AAAGCTATGATTTATTTTGAATAAAAAGTTTAACTTAAATGATAAAAGAATGATAATATTTGTGA
69048845 TAAAACGGACGAGAATATTTCAATAATATTAATAATTTAATAAAAATCGTGATAGAAATATAGAA
586 TAAAACGGACGAGAATATTTCAATAATATTAATAATTTAATAAAAATCGTGATAGAAATATAGAA
69048910 ATATTAAATCACAAATTAAAAGGTTGCAAATTGAGCAGAAATGATCCCTTTTACAGAATTAATCT
651 ATATTAAATCACAAATTAAAAGGTTGCAAATTGAGCAGAAATGATCCCTTTTACAGAATTAATCT
69048975 CAAGGCCGATAGCATAACAGCATAACAAGTTCTATACTTGATCACTTGTAAATTTGGGTATTATT
716 CAAGGCCGATAGCATAACAGCATAACAAGTTCTATACTTGATCACTTGTAAATTTGGGTATTATT
69049040 ATTTATATCTATGTATTGTAGAA
781 ATTTATATCTATGTATTGTAGAA
*
69049063 GAAAA
1 TAAAA
69049068 CAATGACAAA
Statistics
Matches: 805, Mismatches: 2, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
803 800 0.99
804 5 0.01
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (803 bp):
TAAAAATAAAATAAAAGTAGACAAAATATTCTTCATGATTAAAATAAAATAAAATAAAATATTTA
AAATAAAACTTTAAATACAATTTAATTTAATTAGGTCATTTAAAAATAAAATAAAAGTAGACAAA
AGTTTTTCCTGATTAAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGG
TAATTTAAAAGTAAAATAAAAGTAGACAAAAGTTTTTTCGTGATTAAAATAAAATAAAATAAAAT
AAAATAAAACTTTTAATTTAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGATAA
AATATTTTAAACATTGTTAAGTCTTTCTTTTAATTTGTATTTATTAATTTGTTAATTTAAAAGTT
AGGTAATTTAAAAATAAAATAAAATAAAATATTTAAATTAATGACATTAAACTTGTTAAGTCTTT
CTTTTAATTTGCATTTATTAATTTAAGTAAACATTGTTCTTTTGGTAACAGCAAGTTTATGCTTA
AAAGCTATGATTTATTTTGAATAAAAAGTTTAACTTAAATGATAAAAGAATGATAATATTTGTGA
TAAAACGGACGAGAATATTTCAATAATATTAATAATTTAATAAAAATCGTGATAGAAATATAGAA
ATATTAAATCACAAATTAAAAGGTTGCAAATTGAGCAGAAATGATCCCTTTTACAGAATTAATCT
CAAGGCCGATAGCATAACAGCATAACAAGTTCTATACTTGATCACTTGTAAATTTGGGTATTATT
ATTTATATCTATGTATTGTAGAA
Found at i:69048509 original size:5 final size:5
Alignment explanation
Indices: 69048499--69048528 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
69048489 TTTTCGTGAT
69048499 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
69048529 CTTTTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:69048543 original size:101 final size:101
Alignment explanation
Indices: 69048260--69048586 Score: 479
Period size: 101 Copynumber: 3.3 Consensus size: 101
69048250 TATTGTAGAA
*
69048260 TAAAAATAAAATAAAAGTAGACAAAA-TATTCTTCATGATTAAAATAAAATAAAATAAAATATTT
1 TAAAAATAAAATAAAAGTAGACAAAAGT-TTTTTCATGATTAAAATAAAATAAAAT-AAA-A--T
*
69048324 AAAATAAAACTTTAAATACAATTTAATTTAATTAGGTCATT
61 AAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATT
*
69048365 TAAAAATAAAATAAAAGTAGACAAAAG-TTTTTCCTGA-T----TAAAATAAAATAAAATAAAAT
1 TAAAAATAAAATAAAAGTAGACAAAAGTTTTTTCATGATTAAAATAAAATAAAATAAAATAAAAT
69048424 AAAACTTTAAATACAATTTAATTTAATTAGGTAATT
66 AAAACTTTAAATACAATTTAATTTAATTAGGTAATT
* *
69048460 TAAAAGTAAAATAAAAGTAGACAAAAGTTTTTTCGTGATTAAAATAAAATAAAATAAAATAAAAT
1 TAAAAATAAAATAAAAGTAGACAAAAGTTTTTTCATGATTAAAATAAAATAAAATAAAATAAAAT
* **
69048525 AAAACTTTTAATTTAATTTAATTTAATTAGGTAATT
66 AAAACTTTAAATACAATTTAATTTAATTAGGTAATT
*
69048561 TAAAAATAAAATAAAAGTAGATAAAA
1 TAAAAATAAAATAAAAGTAGACAAAA
69048587 TATTTTAAAC
Statistics
Matches: 205, Mismatches: 10, Indels: 18
0.88 0.04 0.08
Matches are distributed among these distances:
95 67 0.33
96 9 0.04
97 2 0.01
98 3 0.01
99 11 0.05
101 78 0.38
103 1 0.00
104 8 0.04
105 26 0.13
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (101 bp):
TAAAAATAAAATAAAAGTAGACAAAAGTTTTTTCATGATTAAAATAAAATAAAATAAAATAAAAT
AAAACTTTAAATACAATTTAATTTAATTAGGTAATT
Found at i:69048666 original size:97 final size:100
Alignment explanation
Indices: 69048551--69048738 Score: 260
Period size: 104 Copynumber: 1.9 Consensus size: 100
69048541 TTTAATTTAA
* *
69048551 TTAGGTAATTTAAAAATAAAATAAAAGT-AGATA-AAA-T-AT-TTTAAACATTGTTAAGTCTTT
1 TTAGGTAATTTAAAAATAAAATAAAA-TAAAATATAAATTAATAATTAAAC-TTGTTAAGTCTTT
*
69048611 CTTTTAATTTGTATTTATTAATTTGTTAATTTAAAAG
64 CTTTTAATTTGCATTTATTAATTTGTTAATTTAAAAG
69048648 TTAGGTAATTTAAAAATAAAATAAAATAAAATATTTAAATTAATGACATTAAACTTGTTAAGTCT
1 TTAGGTAATTTAAAAATAAAATAAAATAAAATA--TAAATTAAT-A-ATTAAACTTGTTAAGTCT
69048713 TTCTTTTAATTTGCATTTATTAATTT
62 TTCTTTTAATTTGCATTTATTAATTT
69048739 AAGTAAACAT
Statistics
Matches: 79, Mismatches: 3, Indels: 11
0.85 0.03 0.12
Matches are distributed among these distances:
96 1 0.01
97 30 0.38
100 3 0.04
101 1 0.01
102 2 0.03
104 36 0.46
105 6 0.08
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (100 bp):
TTAGGTAATTTAAAAATAAAATAAAATAAAATATAAATTAATAATTAAACTTGTTAAGTCTTTCT
TTTAATTTGCATTTATTAATTTGTTAATTTAAAAG
Found at i:69049413 original size:8 final size:8
Alignment explanation
Indices: 69049400--69049458 Score: 73
Period size: 8 Copynumber: 7.4 Consensus size: 8
69049390 CAATCAAAAA
69049400 ATTCCACT
1 ATTCCACT
69049408 ATTCCACT
1 ATTCCACT
*
69049416 ATTACACT
1 ATTCCACT
* * *
69049424 ATTACGCA
1 ATTCCACT
*
69049432 ATTACACT
1 ATTCCACT
69049440 ATTCCACT
1 ATTCCACT
69049448 ATTCCACT
1 ATTCCACT
69049456 ATT
1 ATT
69049459 ATCATAATCA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 45 1.00
ACGTcount: A:0.31, C:0.31, G:0.02, T:0.37
Consensus pattern (8 bp):
ATTCCACT
Found at i:69049440 original size:32 final size:32
Alignment explanation
Indices: 69049399--69049459 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
69049389 CCAATCAAAA
*
69049399 AATTCCACTATTCCACTATTACACTATTACGC
1 AATTACACTATTCCACTATTACACTATTACGC
*
69049431 AATTACACTATTCCACTATTCCACTATTA
1 AATTACACTATTCCACTATTACACTATTA
69049460 TCATAATCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.36
Consensus pattern (32 bp):
AATTACACTATTCCACTATTACACTATTACGC
Found at i:69049576 original size:5 final size:5
Alignment explanation
Indices: 69049566--69049595 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
69049556 TTTTCGTGAT
69049566 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
69049596 CTTTTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:69051504 original size:127 final size:127
Alignment explanation
Indices: 69051270--69051502 Score: 330
Period size: 127 Copynumber: 1.8 Consensus size: 127
69051260 CGACGTGTAT
* * * *
69051270 AGTAAACTTTAATTCTTTTGTGGCGTTTTTAAAAGCGCCACTAATACACTATTATACTAAAACGG
1 AGTAAACTTTAATTCTGTTGCGGCGTTTTTAAAAGCGCCACTAATACACTATCATACTAAAACGA
69051335 CGCCGTTTTCTTTAAACTATACTGTCTTTTGCGGTGTTTTTTAGAAAAACGACGATGCTTCC
66 CGCCGTTTTCTTTAAACTATACTGTCTTTTGCGGTGTTTTTTAGAAAAACGACGATGCTTCC
* *
69051397 AGTACACTTTAATTCTGTTGCGGCGTTTTTCAAAA-CGCCACTAAT-CCCTTATCCA-ACTAAAA
1 AGTAAACTTTAATTCTGTTGCGGCGTTTTT-AAAAGCGCCACTAATACAC-TAT-CATACTAAAA
* * *
69051459 TGACGTCGTTTTCTTTAAACTATACT-TTTTTTGCGGTGTTTTTT
63 CGACGCCGTTTTCTTTAAACTATACTGTCTTTTGCGGTGTTTTTT
69051503 TAAATAACGC
Statistics
Matches: 94, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
126 19 0.20
127 70 0.74
128 5 0.05
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.40
Consensus pattern (127 bp):
AGTAAACTTTAATTCTGTTGCGGCGTTTTTAAAAGCGCCACTAATACACTATCATACTAAAACGA
CGCCGTTTTCTTTAAACTATACTGTCTTTTGCGGTGTTTTTTAGAAAAACGACGATGCTTCC
Found at i:69052432 original size:21 final size:21
Alignment explanation
Indices: 69052398--69052453 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
69052388 ATCTTAGACT
* *
69052398 CTAACCCCTAAACCATAAACCC
1 CTAA-CCCTTAACCACAAACCC
* *
69052420 TTAACCCTTAACCACACACCC
1 CTAACCCTTAACCACAAACCC
*
69052441 CTAATCCTTAACC
1 CTAACCCTTAACC
69052454 CCTAACCTGG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 25 0.89
22 3 0.11
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.20
Consensus pattern (21 bp):
CTAACCCTTAACCACAAACCC
Found at i:69052600 original size:14 final size:14
Alignment explanation
Indices: 69052571--69052609 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
69052561 TTCTACACCT
* *
69052571 TAAACCCTGAACCA
1 TAAACCCTAAATCA
*
69052585 TATACCCTAAATCA
1 TAAACCCTAAATCA
69052599 TAAACCCTAAA
1 TAAACCCTAAA
69052610 CTATAATGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.31, G:0.03, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:69055256 original size:48 final size:48
Alignment explanation
Indices: 69055203--69055380 Score: 257
Period size: 48 Copynumber: 3.7 Consensus size: 48
69055193 TAGGGTTATG
* *
69055203 TGTGATCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATA
* * *
69055251 TGTGATCCCATGTAAGACCATATCTGAGATATGGCATTGGAATCGATA
1 TGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATA
* *
69055299 TGTGATCCCATGTAAGACCATATCTAGGATATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATA
** * *
69055347 TGTGATTTCATGTAAGACTATGTCTGGGACATGG
1 TGTGATCCCATGTAAGACCATATCTGGGACATGG
69055381 TATCGATATG
Statistics
Matches: 116, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 116 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATA
Found at i:69055902 original size:17 final size:17
Alignment explanation
Indices: 69055857--69055901 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
69055847 GAAAAATGAG
* *
69055857 AATTTTTAAAATACGAA
1 AATTTTGAAAACACGAA
69055874 AATTTTGAAAACACGAA
1 AATTTTGAAAACACGAA
69055891 AATATTTGAAA
1 AAT-TTTGAAA
69055902 CCTTAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 18 0.72
18 7 0.28
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (17 bp):
AATTTTGAAAACACGAA
Found at i:69057342 original size:28 final size:26
Alignment explanation
Indices: 69057310--69057389 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 26
69057300 TTTCTTGGTT
69057310 TTTTTTTTGGGGTTAGGTTTTTCTTTTC
1 TTTTTTTT-GGGTTAGGTTTTT-TTTTC
*
69057338 TTTTTTTTGGGTTAGGTTTTTTCTTC
1 TTTTTTTTGGGTTAGGTTTTTTTTTC
**
69057364 TTTTTTTTTTAGTTAGGTTTTTTTTT
1 -TTTTTTTTGGGTTAGGTTTTTTTTT
69057390 GGGGAGGGCT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
26 4 0.09
27 35 0.74
28 8 0.17
ACGTcount: A:0.05, C:0.05, G:0.17, T:0.72
Consensus pattern (26 bp):
TTTTTTTTGGGTTAGGTTTTTTTTTC
Found at i:69058472 original size:73 final size:73
Alignment explanation
Indices: 69058391--69058687 Score: 337
Period size: 73 Copynumber: 3.9 Consensus size: 73
69058381 TGGAAAAGCC
* *
69058391 GAAATTGAAATTACCTCAATGTGCCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAATGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
69058456 GAAAAACA
66 GAAAAACA
**
69058464 GAAATTGAAAATACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAATGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
69058528 TGAAAAACATAAATTGAACA
65 TG--------AAA---AACA
* * **
69058548 GAAATTGAAACTACCTCAACT-TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAA-TGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT
*
69058612 TTTGAAAACCA
63 TTTGAAAAACA
* * *
69058623 GAAATTTAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTT
1 GAAATTGAAAATACCTCAATGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
69058688 TTGAAACAGA
Statistics
Matches: 191, Mismatches: 16, Indels: 34
0.79 0.07 0.14
Matches are distributed among these distances:
73 64 0.34
74 3 0.02
75 56 0.29
78 3 0.02
81 3 0.02
83 1 0.01
84 55 0.29
86 6 0.03
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (73 bp):
GAAATTGAAAATACCTCAATGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
GAAAAACA
Found at i:69058669 original size:75 final size:73
Alignment explanation
Indices: 69058544--69058700 Score: 235
Period size: 75 Copynumber: 2.1 Consensus size: 73
69058534 ACATAAATTG
* ** *
69058544 AACAGAAATTGAAACTACCTCAACTTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACTTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
69058609 TTTTTTGAA
66 TTTTTTG-A
*
69058618 AACCAGAAATTTAAAATACCTCAA-TGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
1 AA-CAGAAATTGAAAATACCTCAACT-TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
69058682 ATTTTTTTGA
64 ATTTTTTTGA
69058692 AACAGAAAT
1 AACAGAAAT
69058701 AAAAACATCA
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
73 7 0.09
74 6 0.08
75 63 0.83
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (73 bp):
AACAGAAATTGAAAATACCTCAACTTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
TTTTTTGA
Found at i:69058695 original size:159 final size:160
Alignment explanation
Indices: 69058253--69058700 Score: 618
Period size: 159 Copynumber: 2.8 Consensus size: 160
69058243 AGTGTGTGAT
* *
69058253 TTGAAGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
1 TTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
** *
69058318 CAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTCAAAGATATAAATG
66 CAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-AAA-ACATAAATG
* *
69058383 GAAAAGCCGAAATTGAAATTACCTCAATGTGCC
129 G-AAAGCAGAAATTGAAACTACCTCAATGTGCC
*
69058416 TCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAATACC
1 TTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTGAAAATACC
* * ** *
69058479 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTG
65 TCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAACATAAATGG
*
69058544 -AA-CAGAAATTGAAACTACCTCAACT-TGTC
130 AAAGCAGAAATTGAAACTACCTCAA-TGTGCC
** *
69058573 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAACCAGAAATTTAAAATACC
1 TTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA-CAGAAATTGAAAATACC
* * * *
69058638 TCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGAAACAGAAAT
65 TCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAACATAAAT
69058701 AAAAACATCA
Statistics
Matches: 254, Mismatches: 26, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
157 54 0.21
158 7 0.03
159 77 0.30
160 8 0.03
161 9 0.04
162 67 0.26
163 32 0.13
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (160 bp):
TTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
CAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAACATAAATGGA
AAGCAGAAATTGAAACTACCTCAATGTGCC
Found at i:69069449 original size:15 final size:17
Alignment explanation
Indices: 69069429--69069460 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
69069419 TTAGGAAACG
69069429 TACATAA-A-AAATATA
1 TACATAATATAAATATA
69069444 TACATAATATAAATATA
1 TACATAATATAAATATA
69069461 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:69070003 original size:11 final size:11
Alignment explanation
Indices: 69069969--69070010 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
69069959 AAATCATTTT
69069969 GAAGAGAGAAA
1 GAAGAGAGAAA
* *
69069980 GAA-AAAAAAA
1 GAAGAGAGAAA
*
69069990 GAAGGGAGAAA
1 GAAGAGAGAAA
69070001 GAAGAGAGAA
1 GAAGAGAGAA
69070011 GGGAGGGGGG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:69070455 original size:21 final size:18
Alignment explanation
Indices: 69070431--69070477 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 18
69070421 AGGGTTTCTT
69070431 GGTTTTTTTTTAGGGGGGTTA
1 GGTTTTTTTTT---GGGGTTA
69070452 GGTTTTTTTTTGGGGTTA
1 GGTTTTTTTTTGGGGTTA
69070470 GGTTTTTT
1 GGTTTTTT
69070478 GGGGGGGGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.58
21 11 0.42
ACGTcount: A:0.06, C:0.00, G:0.34, T:0.60
Consensus pattern (18 bp):
GGTTTTTTTTTGGGGTTA
Found at i:69070459 original size:19 final size:18
Alignment explanation
Indices: 69070435--69070483 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
69070425 TTTCTTGGTT
69070435 TTTTTTTAGGGGGGTTAGG
1 TTTTTTT-GGGGGGTTAGG
**
69070454 TTTTTTTTTGGGGTTAGG
1 TTTTTTTGGGGGGTTAGG
69070472 -TTTTTTGGGGGG
1 TTTTTTTGGGGGG
69070484 GGGCTTAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 10 0.38
18 9 0.35
19 7 0.27
ACGTcount: A:0.06, C:0.00, G:0.41, T:0.53
Consensus pattern (18 bp):
TTTTTTTGGGGGGTTAGG
Found at i:69070484 original size:18 final size:18
Alignment explanation
Indices: 69070436--69070483 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
69070426 TTCTTGGTTT
69070436 TTTTTTAGGGGGGTTAGG
1 TTTTTTAGGGGGGTTAGG
***
69070454 TTTTTTTTTGGGGTTAGG
1 TTTTTTAGGGGGGTTAGG
69070472 TTTTTT-GGGGGG
1 TTTTTTAGGGGGG
69070484 GGGCTTAATG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.06, C:0.00, G:0.42, T:0.52
Consensus pattern (18 bp):
TTTTTTAGGGGGGTTAGG
Found at i:69070877 original size:48 final size:48
Alignment explanation
Indices: 69070795--69070975 Score: 229
Period size: 48 Copynumber: 3.8 Consensus size: 48
69070785 TAGGGTTATG
* * * *
69070795 TGTGATCCCACGTAAGACCATGTCTGGGACATGGCAATGGCATCGATA
1 TGTGATCCCATGTAAGACCATATCTGAGACATGGCATTGGCATCGATA
* * *
69070843 TGTGATCCCATGTAAGACCATATCTGAGATATGGCATTGGAATCGACA
1 TGTGATCCCATGTAAGACCATATCTGAGACATGGCATTGGCATCGATA
*
69070891 TGTGATCCCATGTAAGACCATATCT-AGGATATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATATCTGA-GACATGGCATTGGCATCGATA
** * * *
69070939 TGTGATTTCATGTAAGACTATGTCTGGGACATGGCAT
1 TGTGATCCCATGTAAGACCATATCTGAGACATGGCAT
69070976 CGATATGAGA
Statistics
Matches: 116, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
47 1 0.01
48 115 0.99
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATATCTGAGACATGGCATTGGCATCGATA
Found at i:69070973 original size:96 final size:96
Alignment explanation
Indices: 69070795--69070975 Score: 263
Period size: 96 Copynumber: 1.9 Consensus size: 96
69070785 TAGGGTTATG
* *
69070795 TGTGATCCCACGTAAGACCATGTCTGGGACATGGCAATGGCATCGATATGTGATCCCATGTAAGA
1 TGTGATCCCACGTAAGACCATATCTAGGACATGGCAATGGCATCGATATGTGATCCCATGTAAGA
*
69070860 CCATATCTGAGATATGGCATTGGAATCGACA
66 CCATATCTGAGACATGGCATTGGAATCGACA
* * * **
69070891 TGTGATCCCATGTAAGACCATATCTAGGATATGGCATTGGCATCGATATGTGATTTCATGTAAGA
1 TGTGATCCCACGTAAGACCATATCTAGGACATGGCAATGGCATCGATATGTGATCCCATGTAAGA
* * *
69070956 CTATGTCTGGGACATGGCAT
66 CCATATCTGAGACATGGCAT
69070976 CGATATGAGA
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 74 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (96 bp):
TGTGATCCCACGTAAGACCATATCTAGGACATGGCAATGGCATCGATATGTGATCCCATGTAAGA
CCATATCTGAGACATGGCATTGGAATCGACA
Found at i:69076340 original size:32 final size:32
Alignment explanation
Indices: 69076304--69076364 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
69076294 ATATAAAATA
69076304 AGTTGCAACTAACAATATATATTAACATAGCG
1 AGTTGCAACTAACAATATATATTAACATAGCG
*
69076336 AGTTGCAACTAACAATATATTTTAACATA
1 AGTTGCAACTAACAATATATATTAACATA
69076365 AAATTTATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (32 bp):
AGTTGCAACTAACAATATATATTAACATAGCG
Found at i:69076516 original size:23 final size:23
Alignment explanation
Indices: 69076466--69076516 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
69076456 TATTTAAAAA
*
69076466 ATATTTATATTTATAATTTACAT
1 ATATTTATAATTATAATTTACAT
* *
69076489 TTATTTTTAATTATATATTTA-AT
1 ATATTTATAATTATA-ATTTACAT
69076512 ATATT
1 ATATT
69076517 AATACTAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
ATATTTATAATTATAATTTACAT
Found at i:69079767 original size:5 final size:5
Alignment explanation
Indices: 69079757--69079783 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
69079747 AATGATAAGC
69079757 TGGCA TGGCA TGGCA TGGCA TGGCA TG
1 TGGCA TGGCA TGGCA TGGCA TGGCA TG
69079784 TTAAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.41, T:0.22
Consensus pattern (5 bp):
TGGCA
Found at i:69080951 original size:17 final size:17
Alignment explanation
Indices: 69080913--69080951 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
69080903 GAGAATGGAA
69080913 AAAAAGAAAAAAAAAGT
1 AAAAAGAAAAAAAAAGT
* * *
69080930 TAAAAGAACATAAAAGT
1 AAAAAGAAAAAAAAAGT
69080947 AAAAA
1 AAAAA
69080952 TTAAATTGCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.77, C:0.03, G:0.10, T:0.10
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAGT
Found at i:69081118 original size:31 final size:32
Alignment explanation
Indices: 69081060--69081121 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
69081050 TACACCGTTA
*
69081060 ACAACAATTAACGGCTTAGTGACTAAAATATT
1 ACAACAATTAACGGCTAAGTGACTAAAATATT
*
69081092 ACAACATATTAAC-G-TAAGTGATTAAAATAT
1 ACAACA-ATTAACGGCTAAGTGACTAAAATAT
69081122 AACATTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 14 0.52
32 7 0.26
33 6 0.22
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (32 bp):
ACAACAATTAACGGCTAAGTGACTAAAATATT
Found at i:69081696 original size:5 final size:6
Alignment explanation
Indices: 69081679--69081708 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
69081669 TTGTCTTCTC
69081679 TCTTTT TCTTTT TCTTTT TCATTTT TCTTT
1 TCTTTT TCTTTT TCTTTT TC-TTTT TCTTT
69081709 GGTTAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (6 bp):
TCTTTT
Found at i:69081696 original size:12 final size:13
Alignment explanation
Indices: 69081679--69081708 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
69081669 TTGTCTTCTC
69081679 TCTTTTTC-TTTT
1 TCTTTTTCATTTT
69081691 TCTTTTTCATTTT
1 TCTTTTTCATTTT
69081704 TCTTT
1 TCTTT
69081709 GGTTAGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (13 bp):
TCTTTTTCATTTT
Found at i:69090141 original size:223 final size:223
Alignment explanation
Indices: 69089753--69090198 Score: 558
Period size: 223 Copynumber: 2.0 Consensus size: 223
69089743 AGAATAACAA
* * * *
69089753 TGTAACATCTCTTTTTCAGTGAAATCAGAACAGTGGTTTCAGGACCACAAATCCAAAGTCGGAAG
1 TGTAACAGCTCGTTTTCAGTGAAATCAAAACAGTGGTTTCAGGACCACAAATCCAAAGTCGAAAG
* *
69089818 AAAATTTATTTTAATATTATTTTATGGTTTACAGTATGATAAAAATATCGTATGAAAAATTCGTT
66 AAAATTTATTTTAATATTATTTCATGGTCTACAGTATGATAAAAATATCGTATGAAAAATTCGTT
* * * *
69089883 AAGAAATTTTACCGTTTACATGCCTAGCTTGATAAAAAGGACTAAATTATATAAAGTGCAAAAGT
131 AAGAAATTTTACCGTTTACATGCCTAGCTTGATAAAAAGGACCAAATTACATAAAATACAAAAGT
*
69089948 TAAATTCTAGTAGCTAAAGATATCAAAT
196 TAAATTCTAGTAGCTAAAGATACCAAAT
* * * **
69089976 TGTAACAGCTCGTTTTCAGTGAATTTAAAATAGTGGTTTCAGGACCACAAATCTGAA-TCTGAAA
1 TGTAACAGCTCGTTTTCAGTGAAATCAAAACAGTGGTTTCAGGACCACAAATCCAAAGTC-GAAA
* * * * * *
69090040 G-AAATATTATTTTAATATTATTTCATGGTCTGCATTATGATAGAACTATCGTATGAAAATTTTG
65 GAAAAT-TTATTTTAATATTATTTCATGGTCTACAGTATGATAAAAATATCGTATGAAAAATTCG
* * * * * *
69090104 TTAAGAAATTTTACTGATTT-CATGTCTA-ATCTGATAAAAATGACCAAATTGCGTAAAATACAA
129 TTAAGAAATTTTACCG-TTTACATGCCTAGCT-TGATAAAAAGGACCAAATTACATAAAATACAA
* *
69090167 AAGTTGAATTCTAGTAGCTAAAGGTACCAAAT
192 AAGTTAAATTCTAGTAGCTAAAGATACCAAAT
69090199 AGCTATGGAA
Statistics
Matches: 189, Mismatches: 30, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
222 7 0.04
223 179 0.95
224 3 0.02
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (223 bp):
TGTAACAGCTCGTTTTCAGTGAAATCAAAACAGTGGTTTCAGGACCACAAATCCAAAGTCGAAAG
AAAATTTATTTTAATATTATTTCATGGTCTACAGTATGATAAAAATATCGTATGAAAAATTCGTT
AAGAAATTTTACCGTTTACATGCCTAGCTTGATAAAAAGGACCAAATTACATAAAATACAAAAGT
TAAATTCTAGTAGCTAAAGATACCAAAT
Found at i:69090919 original size:25 final size:25
Alignment explanation
Indices: 69090891--69090967 Score: 86
Period size: 25 Copynumber: 3.1 Consensus size: 25
69090881 CACACCACAA
* *
69090891 CTCTTATGAGCGTCCCGATAATTGG
1 CTCTTATGAGCTTCCTGATAATTGG
* *
69090916 CTCTCT-TGAGCTTCCTGTTTA-TGG
1 CTCT-TATGAGCTTCCTGATAATTGG
*
69090940 CTCGTATGAGCTTCCTGATAATTGG
1 CTCTTATGAGCTTCCTGATAATTGG
69090965 CTC
1 CTC
69090968 GTAAGGGCTT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
23 1 0.02
24 19 0.45
25 21 0.50
26 1 0.02
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.38
Consensus pattern (25 bp):
CTCTTATGAGCTTCCTGATAATTGG
Found at i:69090990 original size:25 final size:25
Alignment explanation
Indices: 69090923--69091002 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
69090913 TGGCTCTCTT
* *
69090923 GAGCTTCCTGTT-TATGGCTCGTAT
1 GAGCTTCCTATTATATGGCTCGTAA
*
69090947 GAGCTTCCTGATAAT-TGGCTCGTAA
1 GAGCTTCCT-ATTATATGGCTCGTAA
* **
69090972 GGGCTTCCTATTATATGGCTCAAAA
1 GAGCTTCCTATTATATGGCTCGTAA
69090997 GAGCTT
1 GAGCTT
69091003 TTCGATTACA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
24 13 0.29
25 31 0.69
26 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (25 bp):
GAGCTTCCTATTATATGGCTCGTAA
Found at i:69095394 original size:19 final size:20
Alignment explanation
Indices: 69095354--69095396 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
69095344 GAAATACATT
*
69095354 TGTA-AAAATAATAATCATA
1 TGTATAAAATAATAATCACA
69095373 TGTATAAAATAATAAT-ACA
1 TGTATAAAATAATAATCACA
69095392 TGTAT
1 TGTAT
69095397 TGCTTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (20 bp):
TGTATAAAATAATAATCACA
Found at i:69106325 original size:25 final size:25
Alignment explanation
Indices: 69106297--69106389 Score: 105
Period size: 25 Copynumber: 3.7 Consensus size: 25
69106287 CCACAACTCT
*
69106297 CATGAGCTTCCCGATATTTGGCTCG
1 CATGAGCTTCCCGATATTTGGCTCA
* *
69106322 CATGAGCTTCCCGATATTTGGGTCT
1 CATGAGCTTCCCGATATTTGGCTCA
* * * * *
69106347 CATAAGCTTTCCGTTACTTAGCTCA
1 CATGAGCTTCCCGATATTTGGCTCA
*
69106372 CATGAGCTTCCCGTTATT
1 CATGAGCTTCCCGATATT
69106390 CAGCTCGGAA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.35
Consensus pattern (25 bp):
CATGAGCTTCCCGATATTTGGCTCA
Found at i:69106355 original size:50 final size:50
Alignment explanation
Indices: 69106294--69106389 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
69106284 ACACCACAAC
* * * *
69106294 TCTCATGAGCTTCCCGATATTTGGCTCGCATGAGCTTCCCGATATTTGGG
1 TCTCATAAGCTTCCCGATACTTAGCTCACATGAGCTTCCCGATATTTGGG
* * *
69106344 TCTCATAAGCTTTCCGTTACTTAGCTCACATGAGCTTCCCGTTATT
1 TCTCATAAGCTTCCCGATACTTAGCTCACATGAGCTTCCCGATATT
69106390 CAGCTCGGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.36
Consensus pattern (50 bp):
TCTCATAAGCTTCCCGATACTTAGCTCACATGAGCTTCCCGATATTTGGG
Found at i:69114691 original size:478 final size:477
Alignment explanation
Indices: 69113796--69114820 Score: 1714
Period size: 478 Copynumber: 2.1 Consensus size: 477
69113786 GCTTCTGCAG
*
69113796 TCCTCAGCTTTTCAGCAAGATCATTCTTCTCTTGAGCTACTGCCTGCATCATTTAAGTTTTCACC
1 TCCTCAGCTTTTTAGCAAGATCATTCTTCTCTTGAGCTACTGCCTGCATCATTTAAGTTTTCACC
* * *
69113861 TCAGTAAGATGACTCCTCAAAGGCAAAGGGCAGTTGGAAACATTTTACAGCCAATAGAGGCTTTT
66 TCAGTAAGATGACTCCTCAAAGGCAAAGGGCACTTGGAAACATTTTACAGCCAATAGAGGCCTCT
* *
69113926 GTCCTTCTGCGAAGATACTTTAGCAAGGACAACCAGGTCAGATGCAAAACAAAATTGAACTGAAT
131 GTCCTTCTGCGAAGATAATCTAGCAAGGACAACCAGGTCAGATGCAAAACAAAATTGAACTGAAT
* * *
69113991 GTGAAGTTTTAGATTTATGGTAGAAAGAACCATTATCATAATTAAGACCCAGAGAAAGTAAGAAG
196 GTGAAGTTTTAAATTTACGGTAGAAAGAACCATTAACATAATTAAGACCCAGAGAAAGTAAGAAG
* *
69114056 AAACAGACCTGCAAACTATTCAATTTCACTTCCATCTCATCATTATAGTTCTTACAGCGTCCAAG
261 AAACAAACCTGCAAACTATTCAATTTCACTTCCAGCTCATCATTATAGTTCTTACAGCGTCCAAG
*
69114121 CTCCTCTTCCTTCTCCTGTTTCTCTCTTTTGATCTGCCTAAGTTCTTGCTTCAACGTCTGCACTT
326 CTCCTCTTCCTTCTCCTGTTTCTCTCTTTTGATCTGCCTAAGTTCTTGCTTCAACATCTGCACTT
* *
69114186 CATTTGAAAGTGACTGTTGTTCTGCTTTTTGAGCTTCAACTTCTGTTCTCAATTCTTCGACGAAT
391 CATTTGAAAGTGACTGTTGTTCTGCTTTTTGAGCTTCAACTTCTGTTCTCAATTCTTCAACGAAG
*
69114251 CTGTTCTTATCAGCTTCAGTCT
456 CTGTTCTTATCAGCTTCAGTCA
*
69114273 TCCTCAGCTTTTTAGCAATATCATTCTTCTCTTGAGCTACTGCCTGCATCATTTAAGTTTTCACC
1 TCCTCAGCTTTTTAGCAAGATCATTCTTCTCTTGAGCTACTGCCTGCATCATTTAAGTTTTCACC
*
69114338 TCAGTAAGATGACTCCTCAAAGGCAAAGGGCACTTGGAAACATTTTACAGCCTATAGAGGCCTCT
66 TCAGTAAGATGACTCCTCAAAGGCAAAGGGCACTTGGAAACATTTTACAGCCAATAGAGGCCTCT
* *
69114403 GTCCTTCTGCGAGGATAATCTAGCGAGGACAACCAGGTCAGATGCAAAACAAAAATTGAACTGAA
131 GTCCTTCTGCGAAGATAATCTAGCAAGGACAACCAGGTCAGATGCAAAAC-AAAATTGAACTGAA
* * *
69114468 TTTGAAGTTTTAAATTTACGGTAGAAAGAACCATTAACATAACTT-GGATCCAGAGAAAGTAAGA
195 TGTGAAGTTTTAAATTTACGGTAGAAAGAACCATTAACATAA-TTAAGACCCAGAGAAAGTAAGA
*
69114532 AGAAACAAACCTGCAAACTATTCAACTTT-TCTTCCAGCTCATCATTATAGTTCTTACAGCGTCC
259 AGAAACAAACCTGCAAACTATTCAA-TTTCACTTCCAGCTCATCATTATAGTTCTTACAGCGTCC
** * *
69114596 AATTTCCTCTTCCTTCTCCTGTTTCTCTCTTTTGATCTGCTTAAGTTCTTGCTTCAACATCTGGA
323 AAGCTCCTCTTCCTTCTCCTGTTTCTCTCTTTTGATCTGCCTAAGTTCTTGCTTCAACATCTGCA
69114661 CTTCATTTGAAAGTGACTGTTGTTCTGCTTTTTGAGCTTCAACTTCTGTTCTCAATTCTTCAACG
388 CTTCATTTGAAAGTGACTGTTGTTCTGCTTTTTGAGCTTCAACTTCTGTTCTCAATTCTTCAACG
* * *
69114726 AGGCTGTTCTTATCAGCTTCGGTGA
453 AAGCTGTTCTTATCAGCTTCAGTCA
* *
69114751 TCCTCAGCTTTTTAGCAAGATAATTCTTCTCTTGAGCTACTTCCTGCATCATTTAAGTTTT-ACC
1 TCCTCAGCTTTTTAGCAAGATCATTCTTCTCTTGAGCTACTGCCTGCATCATTTAAGTTTTCACC
69114815 TCAGTA
66 TCAGTA
69114821 CGATAAACAA
Statistics
Matches: 512, Mismatches: 33, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
477 179 0.35
478 328 0.64
479 5 0.01
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (477 bp):
TCCTCAGCTTTTTAGCAAGATCATTCTTCTCTTGAGCTACTGCCTGCATCATTTAAGTTTTCACC
TCAGTAAGATGACTCCTCAAAGGCAAAGGGCACTTGGAAACATTTTACAGCCAATAGAGGCCTCT
GTCCTTCTGCGAAGATAATCTAGCAAGGACAACCAGGTCAGATGCAAAACAAAATTGAACTGAAT
GTGAAGTTTTAAATTTACGGTAGAAAGAACCATTAACATAATTAAGACCCAGAGAAAGTAAGAAG
AAACAAACCTGCAAACTATTCAATTTCACTTCCAGCTCATCATTATAGTTCTTACAGCGTCCAAG
CTCCTCTTCCTTCTCCTGTTTCTCTCTTTTGATCTGCCTAAGTTCTTGCTTCAACATCTGCACTT
CATTTGAAAGTGACTGTTGTTCTGCTTTTTGAGCTTCAACTTCTGTTCTCAATTCTTCAACGAAG
CTGTTCTTATCAGCTTCAGTCA
Found at i:69118304 original size:22 final size:22
Alignment explanation
Indices: 69118279--69118322 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
69118269 CTCCTATCAT
69118279 CTTTTCATTCTTCAGAATATCC
1 CTTTTCATTCTTCAGAATATCC
69118301 CTTTTCATTCTTCAGAATATCC
1 CTTTTCATTCTTCAGAATATCC
69118323 TTCAACCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.27, G:0.05, T:0.45
Consensus pattern (22 bp):
CTTTTCATTCTTCAGAATATCC
Found at i:69119214 original size:6 final size:6
Alignment explanation
Indices: 69119198--69119234 Score: 65
Period size: 6 Copynumber: 6.0 Consensus size: 6
69119188 GGAAAGCGTC
69119198 AGGGCCA AGGGCA AGGGCA AGGGCA AGGGCA AGGGCA
1 AGGG-CA AGGGCA AGGGCA AGGGCA AGGGCA AGGGCA
69119235 TCGCTTCCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 26 0.87
7 4 0.13
ACGTcount: A:0.32, C:0.19, G:0.49, T:0.00
Consensus pattern (6 bp):
AGGGCA
Found at i:69126460 original size:43 final size:43
Alignment explanation
Indices: 69126368--69126563 Score: 272
Period size: 43 Copynumber: 4.6 Consensus size: 43
69126358 TTCGACGAAC
* * *
69126368 TCGCACCCTTAGTGCTAATTAATTAACC-AAGCTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
*
69126410 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCCATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
* *
69126453 TCGCACACTTAGTGCCAATTAATTAGCTGAAGCTATAATTATA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
* *
69126496 TCGCACACTTAGTGCCAACTT-AGTAGCCGAAACTATAATTGTA
1 TCGCACACTTAGTGCCAA-TTAATTAGCCGAAGCTATAATTGTA
*
69126539 TCGCACACTTAGCGCC-ATTACATTA
1 TCGCACACTTAGTGCCAATTA-ATTA
69126564 AACTGAACTT
Statistics
Matches: 137, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
41 2 0.01
42 26 0.19
43 107 0.78
44 2 0.01
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (43 bp):
TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
Found at i:69132617 original size:43 final size:43
Alignment explanation
Indices: 69132523--69132718 Score: 272
Period size: 43 Copynumber: 4.6 Consensus size: 43
69132513 TTCGACGAAC
* * *
69132523 TCGCACACTTAGTTCTAATTAATTAACC-AAGCTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
*
69132565 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCCATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
* *
69132608 TCGCACACTTAGTGCCAATTAATTAGCTGAAGCTATAATTATA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
* *
69132651 TCGCACACTTAGTGCCAACTT-AGTAGCCGAAACTATAATTGTA
1 TCGCACACTTAGTGCCAA-TTAATTAGCCGAAGCTATAATTGTA
*
69132694 TCGCACACTTAGCGCC-ATTACATTA
1 TCGCACACTTAGTGCCAATTA-ATTA
69132719 AACTGAACTT
Statistics
Matches: 137, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
41 2 0.01
42 26 0.19
43 107 0.78
44 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (43 bp):
TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
Found at i:69134071 original size:5 final size:6
Alignment explanation
Indices: 69134058--69134108 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
69134048 ATAATTTAAT
* *
69134058 AAATAA AAATAA AAATCTAA AACTAA AAAAAA AAAT-A AAA-AA AAATAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAATAA
69134106 AAA
1 AAA
69134109 ACATATAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 8 0.22
6 24 0.65
8 5 0.14
ACGTcount: A:0.82, C:0.04, G:0.00, T:0.14
Consensus pattern (6 bp):
AAATAA
Found at i:69134109 original size:10 final size:10
Alignment explanation
Indices: 69134084--69134109 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
69134074 CTAAAACTAA
69134084 AAAAAAAAAT
1 AAAAAAAAAT
69134094 AAAAAAAAAT
1 AAAAAAAAAT
69134104 AAAAAA
1 AAAAAA
69134110 CATATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:69134146 original size:9 final size:9
Alignment explanation
Indices: 69134128--69134186 Score: 73
Period size: 9 Copynumber: 6.6 Consensus size: 9
69134118 TTTATACAAA
*
69134128 TAATTTGGT
1 TAATTCGGT
69134137 TAATTCGGT
1 TAATTCGGT
* *
69134146 TAATTTGGG
1 TAATTCGGT
*
69134155 TAATTTGGT
1 TAATTCGGT
*
69134164 TAATTCGAT
1 TAATTCGGT
69134173 TAATTCGGT
1 TAATTCGGT
69134182 TAATT
1 TAATT
69134187 TTATACTTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.49
Consensus pattern (9 bp):
TAATTCGGT
Found at i:69134151 original size:18 final size:18
Alignment explanation
Indices: 69134128--69134187 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
69134118 TTTATACAAA
69134128 TAATTTGGTTAATTCGGT
1 TAATTTGGTTAATTCGGT
* *
69134146 TAATTTGGGTAATTTGGT
1 TAATTTGGTTAATTCGGT
* *
69134164 TAATTCGATTAATTCGGT
1 TAATTTGGTTAATTCGGT
69134182 TAATTT
1 TAATTT
69134188 TATACTTATT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.50
Consensus pattern (18 bp):
TAATTTGGTTAATTCGGT
Found at i:69134166 original size:27 final size:27
Alignment explanation
Indices: 69134128--69134187 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
69134118 TTTATACAAA
* *
69134128 TAATTTGGTTAATTCGGTTAATTTGGG
1 TAATTTGGTTAATTCGATTAATTCGGG
*
69134155 TAATTTGGTTAATTCGATTAATTCGGT
1 TAATTTGGTTAATTCGATTAATTCGGG
69134182 TAATTT
1 TAATTT
69134188 TATACTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.50
Consensus pattern (27 bp):
TAATTTGGTTAATTCGATTAATTCGGG
Found at i:69137875 original size:29 final size:31
Alignment explanation
Indices: 69137834--69137913 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 31
69137824 ATTGTTATTA
* *
69137834 TATACTTTTATCATTTTAGTAA-C-T-TTTGT
1 TATAATTTTATCATTTTAGTAACCATCATT-T
* *
69137863 TATAATTTTATCACTTTAATAACCATCATTT
1 TATAATTTTATCATTTTAGTAACCATCATTT
*
69137894 CATAATTTTATCATTTTAGT
1 TATAATTTTATCATTTTAGT
69137914 CGTCCGCCAT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 19 0.46
30 1 0.02
31 19 0.46
32 2 0.05
ACGTcount: A:0.30, C:0.12, G:0.04, T:0.54
Consensus pattern (31 bp):
TATAATTTTATCATTTTAGTAACCATCATTT
Found at i:69138275 original size:4 final size:4
Alignment explanation
Indices: 69138266--69138301 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
69138256 TTGATTCTAA
*
69138266 AAAT AAAT AAAT AAAT AAAT GAAAT AAAT AGAT AAA
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAA
69138302 ATGGTTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:69138290 original size:17 final size:16
Alignment explanation
Indices: 69138266--69138301 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
69138256 TTGATTCTAA
69138266 AAATAAATAAATAAAT
1 AAATAAATAAATAAAT
*
69138282 AAATGAAATAAATAGAT
1 AAAT-AAATAAATAAAT
69138299 AAA
1 AAA
69138302 ATGGTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (16 bp):
AAATAAATAAATAAAT
Found at i:69138303 original size:13 final size:13
Alignment explanation
Indices: 69138266--69138303 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
69138256 TTGATTCTAA
69138266 AAATAAAT-AAAT
1 AAATAAATAAAAT
*
69138278 AAATAAATGAAAT
1 AAATAAATAAAAT
*
69138291 AAATAGATAAAAT
1 AAATAAATAAAAT
69138304 GGTTTTTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 8 0.35
13 15 0.65
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:69144302 original size:138 final size:139
Alignment explanation
Indices: 69144093--69144368 Score: 511
Period size: 138 Copynumber: 2.0 Consensus size: 139
69144083 AAATGCATAC
69144093 AAATTATAAAAAAAAATTATAAATAAATGAATACCCATTTCTAGGGTAAACTATAGAATTAGCTA
1 AAATTATAAAAAAAAATTATAAATAAATGAATACCCATTTCTAGGGTAAACTATAGAATTAGCTA
69144158 ACCAACTATTAGCATGTTTCTATTTAAGCCACCTAATTATAAAATTTTACAATTTAGTCACTAAC
66 ACCAACTATTAGCATGTTTCTATTTAAGCCACCTAATTATAAAATTTTACAATTTAGTCACTAAC
69144223 ATTTCAGGA
131 ATTTCAGGA
69144232 AAATTAT-AAAAAAAATTATAAATAAATGAATACCCATTTCTAGGGTAAACTATAGAATTAG-TC
1 AAATTATAAAAAAAAATTATAAATAAATGAATACCCATTTCTAGGGTAAACTATAGAATTAGCT-
* *
69144295 AACCAACTATTAGCGTGTTTCTGTTTAAGCCACCTAATTATAAAATTTTACAATTTAGTCACTAA
65 AACCAACTATTAGCATGTTTCTATTTAAGCCACCTAATTATAAAATTTTACAATTTAGTCACTAA
69144360 CATTTCAGG
130 CATTTCAGG
69144369 TCATTTCTAT
Statistics
Matches: 134, Mismatches: 2, Indels: 3
0.96 0.01 0.02
Matches are distributed among these distances:
137 1 0.01
138 126 0.94
139 7 0.05
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.33
Consensus pattern (139 bp):
AAATTATAAAAAAAAATTATAAATAAATGAATACCCATTTCTAGGGTAAACTATAGAATTAGCTA
ACCAACTATTAGCATGTTTCTATTTAAGCCACCTAATTATAAAATTTTACAATTTAGTCACTAAC
ATTTCAGGA
Found at i:69144818 original size:17 final size:17
Alignment explanation
Indices: 69144796--69144828 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
69144786 AATATATCTC
*
69144796 TAAAAAATTAAAAATAT
1 TAAAAAATAAAAAATAT
69144813 TAAAAAATAAAAAATA
1 TAAAAAATAAAAAATA
69144829 AATCTAAAAT
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAAAAATAAAAAATAT
Found at i:69145358 original size:18 final size:19
Alignment explanation
Indices: 69145331--69145369 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
69145321 TTTATAAACT
*
69145331 TTTTTTAAAT-TTTTTTTA
1 TTTTTAAAATATTTTTTTA
69145349 TTTTTAAAATATTTTTTTA
1 TTTTTAAAATATTTTTTTA
69145368 TT
1 TT
69145370 AATTTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTAAAATATTTTTTTA
Found at i:69147259 original size:40 final size:40
Alignment explanation
Indices: 69147214--69147305 Score: 94
Period size: 40 Copynumber: 2.3 Consensus size: 40
69147204 GTCTATATTT
* * * *
69147214 TTGCACTTCGGTGCACTTGTTTACATTTCGGTGTCCTTAA
1 TTGCACTTCGGTGCACCTGTTTACACTTCAGTGTCCATAA
** * * **
69147254 TTGCACCCCGGTGCCCCTGTTTACACTTCAGTGTTCATGT
1 TTGCACTTCGGTGCACCTGTTTACACTTCAGTGTCCATAA
69147294 TTGCACTTCGGT
1 TTGCACTTCGGT
69147306 ACCCCTTTTA
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.13, C:0.27, G:0.21, T:0.39
Consensus pattern (40 bp):
TTGCACTTCGGTGCACCTGTTTACACTTCAGTGTCCATAA
Found at i:69149621 original size:59 final size:59
Alignment explanation
Indices: 69149541--69149658 Score: 191
Period size: 59 Copynumber: 2.0 Consensus size: 59
69149531 AGATGGAAGA
69149541 AACCCTCCTCACATTGCAGCCATGAAAGAGTTGATTCAAGCCAGACCCTAGGCAGCACG
1 AACCCTCCTCACATTGCAGCCATGAAAGAGTTGATTCAAGCCAGACCCTAGGCAGCACG
* * * * *
69149600 AACCCTCTTCACATTGTAGCCATGAAAGAGTTTATTCATGCCAGACCCTGGGCAGCACG
1 AACCCTCCTCACATTGCAGCCATGAAAGAGTTGATTCAAGCCAGACCCTAGGCAGCACG
69149659 GTTGCCGATG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (59 bp):
AACCCTCCTCACATTGCAGCCATGAAAGAGTTGATTCAAGCCAGACCCTAGGCAGCACG
Found at i:69162800 original size:5 final size:5
Alignment explanation
Indices: 69162790--69162816 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
69162780 TGTGTTTTTA
69162790 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
69162817 CAAAAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:69166430 original size:16 final size:15
Alignment explanation
Indices: 69166403--69166440 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
69166393 TATGTCTTTA
*
69166403 CAATCGGAGGTTGTG
1 CAATCAGAGGTTGTG
69166418 CAAGTCAGAGGTTGTG
1 CAA-TCAGAGGTTGTG
69166434 CAATCAG
1 CAATCAG
69166441 TTGGAAAGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (15 bp):
CAATCAGAGGTTGTG
Found at i:69167236 original size:5 final size:5
Alignment explanation
Indices: 69167226--69167257 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
69167216 TATGTTTTTA
69167226 TTATT TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TT
69167258 CACAGGTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:69172572 original size:23 final size:23
Alignment explanation
Indices: 69172546--69172618 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
69172536 AAATTATGAT
69172546 AAAGATGAGTAAGACCATAGCTA
1 AAAGATGAGTAAGACCATAGCTA
* * *
69172569 AAAGATG-TTATGA-CATCATGATA
1 AAAGATGAGTAAGACCAT-A-GCTA
* *
69172592 GAAG-TTAGTAAGACCATAGCTA
1 AAAGATGAGTAAGACCATAGCTA
69172614 AAAGA
1 AAAGA
69172619 CACTATGACA
Statistics
Matches: 36, Mismatches: 9, Indels: 10
0.65 0.16 0.18
Matches are distributed among these distances:
21 3 0.08
22 12 0.33
23 18 0.50
24 3 0.08
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.22
Consensus pattern (23 bp):
AAAGATGAGTAAGACCATAGCTA
Found at i:69172602 original size:45 final size:46
Alignment explanation
Indices: 69172507--69172618 Score: 156
Period size: 45 Copynumber: 2.5 Consensus size: 46
69172497 CGCCAAAATA
* * *
69172507 AGTAAGACCATAACTGAAAGATGTTTATGAAATTATGATAAAGATG
1 AGTAAGACCATAGCTAAAAGATGTTTATGAAATCATGATAAAGATG
* *
69172553 AGTAAGACCATAGCTAAAAGATG-TTATGACATCATGATAGAAG-TT
1 AGTAAGACCATAGCTAAAAGATGTTTATGAAATCATGATA-AAGATG
69172598 AGTAAGACCATAGCTAAAAGA
1 AGTAAGACCATAGCTAAAAGA
69172619 CACTATGACA
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
45 36 0.60
46 24 0.40
ACGTcount: A:0.46, C:0.10, G:0.20, T:0.25
Consensus pattern (46 bp):
AGTAAGACCATAGCTAAAAGATGTTTATGAAATCATGATAAAGATG
Found at i:69172666 original size:27 final size:26
Alignment explanation
Indices: 69172634--69172693 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
69172624 TGACATCCTT
69172634 TGATAGTCCA-TCGGGACAATAAACACA
1 TGATAGTCCACT-GGGACAATAAA-ACA
* *
69172661 TTATAGTCCACTGTGACAATAAAACA
1 TGATAGTCCACTGGGACAATAAAACA
69172687 TGATAGT
1 TGATAGT
69172694 TCGCCGAGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 9 0.31
27 19 0.66
28 1 0.03
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (26 bp):
TGATAGTCCACTGGGACAATAAAACA
Found at i:69181227 original size:13 final size:12
Alignment explanation
Indices: 69181202--69181242 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
69181192 GAGATTTTGC
*
69181202 TTTCGTTTTTTT
1 TTTCCTTTTTTT
69181214 TTTCCTTTTCTTT
1 TTTCCTTTT-TTT
*
69181227 TTTCCTCTTTTT
1 TTTCCTTTTTTT
69181239 TTTC
1 TTTC
69181243 TTTGAAGTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (12 bp):
TTTCCTTTTTTT
Found at i:69182020 original size:27 final size:27
Alignment explanation
Indices: 69181990--69182045 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
69181980 ATCAGTAATT
* *
69181990 TTGTAAAAAAATTAGCAATTTACAATG
1 TTGTAAAAAAATCAACAATTTACAATG
* * *
69182017 TTGTAAGAATATCAATAATTTACAATG
1 TTGTAAAAAAATCAACAATTTACAATG
69182044 TT
1 TT
69182046 ATAAGAAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.38
Consensus pattern (27 bp):
TTGTAAAAAAATCAACAATTTACAATG
Found at i:69183207 original size:19 final size:19
Alignment explanation
Indices: 69183165--69183212 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
69183155 TTTTACTCGT
* * *
69183165 ATTTTTTTAATAAAATTTA
1 ATTTTTTTAAAAAAAGTAA
*
69183184 TTTTTTTTAAAAAAAGTAA
1 ATTTTTTTAAAAAAAGTAA
*
69183203 ATTTTATTAA
1 ATTTTTTTAA
69183213 TTATGTAAAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
ATTTTTTTAAAAAAAGTAA
Found at i:69183613 original size:19 final size:18
Alignment explanation
Indices: 69183573--69183641 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 18
69183563 ACATTGCAAT
*
69183573 ATTT-TAAAAGATTCAGTAA
1 ATTTGTAAAA-ATTTAGT-A
69183592 ATTTGTAAGAAATTTAGTA
1 ATTTGTAA-AAATTTAGTA
* *
69183611 ATTTGTCAAAAGTTTTGTA
1 ATTTGT-AAAAATTTAGTA
69183630 ATTTAGTAAAAA
1 ATTT-GTAAAAA
69183642 ATACACTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
19 27 0.64
20 13 0.31
21 2 0.05
ACGTcount: A:0.43, C:0.03, G:0.13, T:0.41
Consensus pattern (18 bp):
ATTTGTAAAAATTTAGTA
Found at i:69187332 original size:26 final size:26
Alignment explanation
Indices: 69187296--69187379 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
69187286 CATGAAATTC
69187296 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
69187322 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
69187348 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
69187374 TTATCA
1 TTATCA
69187380 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Done.