Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 8 of 50
Found at i:4484500 original size:2 final size:2
Alignment explanation
Indices: 4484493--4484520 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4484483 CATCTACAAC
4484493 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4484521 TAAGTTTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4490334 original size:30 final size:30
Alignment explanation
Indices: 4490300--4490357 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
4490290 ATTGCCTATA
4490300 CCTCCCCCACTGCCAAAACCACCACCAGGG
1 CCTCCCCCACTGCCAAAACCACCACCAGGG
*
4490330 CCTCCCCCACTGCCAAAACCACCCCCAG
1 CCTCCCCCACTGCCAAAACCACCACCAG
4490358 AACCACCACC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.57, G:0.10, T:0.07
Consensus pattern (30 bp):
CCTCCCCCACTGCCAAAACCACCACCAGGG
Found at i:4493062 original size:14 final size:16
Alignment explanation
Indices: 4493043--4493079 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
4493033 CACTTTAGTT
4493043 TTTATAA-TA-TATTA
1 TTTATAATTAGTATTA
4493057 TTTATAATTAGTTATTA
1 TTTATAATTAG-TATTA
4493074 TTTATA
1 TTTATA
4493080 TCAAACTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 7 0.35
15 2 0.10
17 11 0.55
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TTTATAATTAGTATTA
Found at i:4502888 original size:53 final size:53
Alignment explanation
Indices: 4502819--4502934 Score: 162
Period size: 53 Copynumber: 2.2 Consensus size: 53
4502809 ATATAACTAT
* *
4502819 TAATGAAAAACCATGAATGTCCATT-CCTTGAAGTGAATGTGACAAACGAGCTAC
1 TAAT-AAAAACCATGAATGTCCATTGCC-TGAAGTAAATGCGACAAACGAGCTAC
* * *
4502873 TATTAAAAACTATGAATGTTCATTGCCTGAAGTAAATGCGACAAACGAGCTAC
1 TAATAAAAACCATGAATGTCCATTGCCTGAAGTAAATGCGACAAACGAGCTAC
4502926 TAATAAAAA
1 TAATAAAAA
4502935 AATTATAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 50 0.91
54 5 0.09
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.25
Consensus pattern (53 bp):
TAATAAAAACCATGAATGTCCATTGCCTGAAGTAAATGCGACAAACGAGCTAC
Found at i:4503110 original size:26 final size:26
Alignment explanation
Indices: 4503081--4503149 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
4503071 TATTTTAATT
4503081 ATAATTTTATCA-TCAAAAGTGGATAG
1 ATAATTTTATCACT-AAAAGTGGATAG
* *
4503107 ATAATTTTATCACTAGAAGTGGGTAG
1 ATAATTTTATCACTAAAAGTGGATAG
* *
4503133 GTAATTTTA-CAATAAAA
1 ATAATTTTATCACTAAAA
4503150 AATGGATGGA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 6 0.16
26 30 0.81
27 1 0.03
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (26 bp):
ATAATTTTATCACTAAAAGTGGATAG
Found at i:4503218 original size:18 final size:18
Alignment explanation
Indices: 4503177--4503220 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4503167 AATCCACTAG
* *
4503177 AAGTGGATAACCCATCAT
1 AAGTGGATAACCCACCAA
* *
4503195 ATGTGGATTACCCACCAA
1 AAGTGGATAACCCACCAA
4503213 AAGTGGAT
1 AAGTGGAT
4503221 GTATACTTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (18 bp):
AAGTGGATAACCCACCAA
Found at i:4503316 original size:18 final size:19
Alignment explanation
Indices: 4503293--4503330 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4503283 CTTAACTCAC
*
4503293 TAACCCA-CCAGAAGTGGA
1 TAACCCATCAAGAAGTGGA
4503311 TAACCCATCAAGAAGTGGA
1 TAACCCATCAAGAAGTGGA
4503330 T
1 T
4503331 GAATACTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (19 bp):
TAACCCATCAAGAAGTGGA
Found at i:4510086 original size:17 final size:17
Alignment explanation
Indices: 4510056--4510111 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
4510046 TTACTTATAA
* *
4510056 TATTTTTAAATTTAAAAT
1 TATTTTT-ATTTTAATAT
* *
4510074 TATTTTTCTTTTATTAT
1 TATTTTTATTTTAATAT
4510091 TATTTTTATTTATAATAT
1 TATTTTTATTT-TAATAT
4510109 TAT
1 TAT
4510112 ATAATTTAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
17 16 0.52
18 15 0.48
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTTTTATTTTAATAT
Found at i:4510090 original size:50 final size:50
Alignment explanation
Indices: 4510036--4510130 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
4510026 TTAATTTATC
* *
4510036 ATTATTACTATTACTTATAATATT-TTTAAATTTAAAATTATTTTTCTTTT
1 ATTATTACTATTACTTATAATATTATAT-AATTTAAAATTAATTTTCTTTT
* * *
4510086 ATTATTATTTTTATTTATAATATTATATAATTTAAAATTAATTTT
1 ATTATTACTATTACTTATAATATTATATAATTTAAAATTAATTTT
4510131 AATAACAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 37 0.95
51 2 0.05
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (50 bp):
ATTATTACTATTACTTATAATATTATATAATTTAAAATTAATTTTCTTTT
Found at i:4515998 original size:6 final size:7
Alignment explanation
Indices: 4515971--4515996 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4515961 TGATTTTAAT
4515971 AAAAAAG
1 AAAAAAG
4515978 AAAAAAG
1 AAAAAAG
4515985 AAAAAAG
1 AAAAAAG
4515992 AAAAA
1 AAAAA
4515997 GACAGTTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:4522774 original size:15 final size:16
Alignment explanation
Indices: 4522737--4522774 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
4522727 ATTTTATAAT
4522737 AAAAATATAAATATTA
1 AAAAATATAAATATTA
* *
4522753 TAAAATAT-AATTTTA
1 AAAAATATAAATATTA
4522768 AAAAATA
1 AAAAATA
4522775 ACTATTAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAAATATAAATATTA
Found at i:4527596 original size:15 final size:14
Alignment explanation
Indices: 4527576--4527607 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
4527566 TATATATTTT
4527576 TAATATAATTAATTA
1 TAATATAATT-ATTA
4527591 TAATATAATTATTA
1 TAATATAATTATTA
4527605 TAA
1 TAA
4527608 AATTATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TAATATAATTATTA
Found at i:4550877 original size:30 final size:30
Alignment explanation
Indices: 4550813--4550879 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
4550803 ATGATGAAAT
* *
4550813 TAAAATTTGATGTTTAAGAGATAAAAATCA
1 TAAAATTTAATATTTAAGAGATAAAAATCA
* *
4550843 -AAAATTTAATATTTATAGGGAT-AAAATTA
1 TAAAATTTAATATTTA-AGAGATAAAAATCA
4550872 TAAAATTT
1 TAAAATTT
4550880 GAAAAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.51, C:0.01, G:0.10, T:0.37
Consensus pattern (30 bp):
TAAAATTTAATATTTAAGAGATAAAAATCA
Found at i:4571731 original size:2 final size:2
Alignment explanation
Indices: 4571726--4571757 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4571716 TCTCTTATTA
*
4571726 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4571758 TGAATTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4574040 original size:80 final size:80
Alignment explanation
Indices: 4573907--4574068 Score: 252
Period size: 80 Copynumber: 2.0 Consensus size: 80
4573897 TCGTAATCAC
* *
4573907 ATTACAATGAAAAGCCTTTCCCATGTGTTTTAGACAAACCAAACGCTGTAATGTGATTATGTCCA
1 ATTACAATGAAAAGACTTTACCATGTGTTTTAGACAAACCAAACGCTGTAATGTGATTATGTCCA
* *
4573972 ATTAAAATACAGGGA
66 AATAAAATACAGAGA
* * *
4573987 ATTACAATGAGAAGACTTTACCGTGTGTTTTAGACAAACCAAATGCTGTAATGTGATTATGTCCA
1 ATTACAATGAAAAGACTTTACCATGTGTTTTAGACAAACCAAACGCTGTAATGTGATTATGTCCA
*
4574052 AATAAAATGCAGAGA
66 AATAAAATACAGAGA
4574067 AT
1 AT
4574069 GTTCCCCACA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 74 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (80 bp):
ATTACAATGAAAAGACTTTACCATGTGTTTTAGACAAACCAAACGCTGTAATGTGATTATGTCCA
AATAAAATACAGAGA
Found at i:4579090 original size:45 final size:45
Alignment explanation
Indices: 4579004--4579108 Score: 130
Period size: 45 Copynumber: 2.4 Consensus size: 45
4578994 TTTAAAAAAT
*
4579004 GAATA-TATTTAA-A-TATTATTTAACTATAATAAATATTATAAA
1 GAATATTATTTAATATTATTATTTAACTATAATAAATATAATAAA
* *
4579046 GAATATTATTTAATATTATTATTTGAA-TATAATGAATGTAATAAA
1 GAATATTATTTAATATTATTATTT-AACTATAATAAATATAATAAA
*
4579091 G-ATATTATTTAGTATTAT
1 GAATATTATTTAATATTAT
4579109 ATAAATTTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
42 5 0.09
43 7 0.13
44 17 0.31
45 24 0.44
46 2 0.04
ACGTcount: A:0.47, C:0.01, G:0.07, T:0.46
Consensus pattern (45 bp):
GAATATTATTTAATATTATTATTTAACTATAATAAATATAATAAA
Found at i:4579120 original size:41 final size:44
Alignment explanation
Indices: 4579004--4579122 Score: 115
Period size: 45 Copynumber: 2.8 Consensus size: 44
4578994 TTTAAAAAAT
* * * *
4579004 GAATA-TATTTAA-A-TATTATTTAACTATAATAAATATTATAAA
1 GAATATTATTTAATATTATTA-TTAAATATAATGAATGTAATAAA
*
4579046 GAATATTATTTAATATTATTATTTGAATATAATGAATGTAATAAA
1 GAATATTATTTAATATTATTA-TTAAATATAATGAATGTAATAAA
* *
4579091 G-ATATTATTTAGTATTA-TA-TAAATTTAATGAA
1 GAATATTATTTAATATTATTATTAAATATAATGAA
4579123 GAATATATTT
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
41 11 0.17
42 5 0.08
43 9 0.14
44 16 0.24
45 25 0.38
ACGTcount: A:0.48, C:0.01, G:0.07, T:0.45
Consensus pattern (44 bp):
GAATATTATTTAATATTATTATTAAATATAATGAATGTAATAAA
Found at i:4580005 original size:15 final size:16
Alignment explanation
Indices: 4579985--4580015 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
4579975 AAACTTTAAT
4579985 TTTTTAAA-TTTCAAA
1 TTTTTAAATTTTCAAA
4580000 TTTTTAAATTTTCAAA
1 TTTTTAAATTTTCAAA
4580016 ACACTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTTTAAATTTTCAAA
Found at i:4580398 original size:2 final size:2
Alignment explanation
Indices: 4580393--4580430 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4580383 TCAAAAAAAC
4580393 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4580431 TGTTCAGATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4582263 original size:104 final size:106
Alignment explanation
Indices: 4582129--4582335 Score: 312
Period size: 104 Copynumber: 2.0 Consensus size: 106
4582119 TCCACCCCAA
* * *
4582129 CTCGTAGAGGCACTAATGAAATGATCTTGAAATTTTATTTGATTATTCATTG-AAAATCTGAAA-
1 CTCGTAGAGACACCAATGAAATGATCTTGAAATTTTATTTGACTATTCATTGAAAAATCTGAAAG
*
4582192 GTTGAAT-TGTTTTTCTCTAATTAAGTTATATATATATAAAG
66 GTTGAATCTCTTTTT-TCTAATTAAGTTATATATATATAAAG
* * *
4582233 CTCGTTGAGACACCAATGAAATGATTTTGAAATTTTATTTGACTATTTATTGAAAAATCTGAAAG
1 CTCGTAGAGACACCAATGAAATGATCTTGAAATTTTATTTGACTATTCATTGAAAAATCTGAAAG
*
4582298 GTTGAATCTCTTTTTTCTAATTAAGTTATATCTATATA
66 GTTGAATCTCTTTTTTCTAATTAAGTTATATATATATA
4582336 TGTATAGGGT
Statistics
Matches: 92, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
104 46 0.50
105 11 0.12
106 29 0.32
107 6 0.07
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.42
Consensus pattern (106 bp):
CTCGTAGAGACACCAATGAAATGATCTTGAAATTTTATTTGACTATTCATTGAAAAATCTGAAAG
GTTGAATCTCTTTTTTCTAATTAAGTTATATATATATAAAG
Found at i:4584959 original size:22 final size:22
Alignment explanation
Indices: 4584931--4584981 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
4584921 GTGTCACTAG
* * *
4584931 TTTTTAGATATTTCGAGATTGA
1 TTTTTAGATATTACGAAACTGA
4584953 TTTTTAGATATTACGAAACTGA
1 TTTTTAGATATTACGAAACTGA
4584975 TTTTTAG
1 TTTTTAG
4584982 GCATTAAGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.49
Consensus pattern (22 bp):
TTTTTAGATATTACGAAACTGA
Found at i:4610180 original size:252 final size:252
Alignment explanation
Indices: 4609649--4610107 Score: 665
Period size: 252 Copynumber: 1.8 Consensus size: 252
4609639 ATAGTTCGAG
*
4609649 AAAATACTAACATATCATTATATGATAAATGATTCTATTAAGATATAATATTAAAAAAGAGTCTT
1 AAAATACTAACATATCATTATATGACAAATGATTCTATTAAGATATAATATTAAAAAAGAGTCTT
*
4609714 TGAACTATTTTGAAAATTTAAATAAAATTTTTTATTAGTTCAATCAAGCTATTAAGTCAAATAGG
66 TGAACTATTTTGAAAATTTAAATAAAATTTTTTATTAATTCAATCAAGCTATTAAGTCAAATAGG
* * *
4609779 TTATTTTGATTAATAATTGATTAATTGTTATTAGTCAAAATGTCATTTGTCATTAGTTATTTTTT
131 TTATATTGATTAATAATTGATTAATTGTTATTAGTCAAAATGTCATTTGTCATTAGTTATTATAT
** * * * * * ** *
4609844 TTCATTTAGGAAAAAGGAGATTCAAACCCTACTTTTTAAGTAAATAGATCATACACT
196 TTCAAGTAGGAAAAAGCAAAATCAAACACTAATGCTCAAGTAAATAGATCATACACT
*
4609901 GAAAATACTAACATATCATTATATGACAAATGATTCTATTAAGATATAATATTAAAAGA-AGTCT
1 -AAAATACTAACATATCATTATATGACAAATGATTCTATTAAGATATAATATTAAAAAAGAGTCT
* * *
4609965 TTGAATTATTTTGAAAATTTAAATAAATTTTTTTATTAATTCAATCAAGCTATTAGGTCAAATA-
65 TTGAACTATTTTGAAAATTTAAATAAAATTTTTTATTAATTCAATCAAGCTATTAAGTCAAATAG
* * *
4610029 GTTCATATTGATTAATAATTGATTAATTGTTATTAGTTAAAATGTCATTTGTCATT-TTTCTTAT
130 GTT-ATATTGATTAATAATTGATTAATTGTTATTAGTCAAAATGTCATTTGTCATTAGTTATTAT
4610093 ATTT-AAGTAGAGAAA
194 ATTTCAAGTAG-GAAA
4610108 TTATGCACAA
Statistics
Matches: 190, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
250 4 0.02
251 15 0.08
252 115 0.61
253 56 0.29
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (252 bp):
AAAATACTAACATATCATTATATGACAAATGATTCTATTAAGATATAATATTAAAAAAGAGTCTT
TGAACTATTTTGAAAATTTAAATAAAATTTTTTATTAATTCAATCAAGCTATTAAGTCAAATAGG
TTATATTGATTAATAATTGATTAATTGTTATTAGTCAAAATGTCATTTGTCATTAGTTATTATAT
TTCAAGTAGGAAAAAGCAAAATCAAACACTAATGCTCAAGTAAATAGATCATACACT
Found at i:4615996 original size:5 final size:5
Alignment explanation
Indices: 4615988--4616012 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4615978 TTTAAAAAAT
4615988 TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA
4616013 AAAATTATGA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:4627396 original size:107 final size:111
Alignment explanation
Indices: 4627264--4627494 Score: 278
Period size: 107 Copynumber: 2.1 Consensus size: 111
4627254 GAAGATGATT
* * * *
4627264 ATAATATTTTTTCAATATGACGTATAATAATTTTTTTTAAATATGGCGTGAGAC-AATTCTTTTT
1 ATAATATTTTTTCAATATGACGTATAATAACTGTTTTTAAATATGGCGTAAAACAAATTCTTTTT
* *
4627328 TTT-AACATGATATGTAACAA-CTTCTTT-AACAT-AGTGTGTAACA
66 TTTCAAAATGACATGTAACAATCTTCTTTCAACATGA-TGTGTAACA
** * *
4627371 ATAATATTTTTTCAATATGGTGTATAATAACTGTTTTTCAATATGGCGTAAAACAAATTTTTTTT
1 ATAATATTTTTTCAATATGACGTATAATAACTGTTTTTAAATATGGCGTAAAACAAATTCTTTTT
* * *
4627436 TTTCAAAATGACGTGTAACAATTTTTTTTTCAACATGATGTGTAACA
66 TTTCAAAATGACATGTAACAA-TCTTCTTTCAACATGATGTGTAACA
4627483 AT-AT-TTTTTTCA
1 ATAATATTTTTTCA
4627495 TGTGCGCTTG
Statistics
Matches: 105, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
107 47 0.45
108 12 0.11
109 14 0.13
110 8 0.08
111 7 0.07
112 16 0.15
113 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (111 bp):
ATAATATTTTTTCAATATGACGTATAATAACTGTTTTTAAATATGGCGTAAAACAAATTCTTTTT
TTTCAAAATGACATGTAACAATCTTCTTTCAACATGATGTGTAACA
Found at i:4627433 original size:26 final size:26
Alignment explanation
Indices: 4627377--4627434 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
4627367 AACAATAATA
* * * *
4627377 TTTTTTCAATATGGTGTATAATAACT
1 TTTTTTCAATATGGCGTAAAACAAAT
*
4627403 GTTTTTCAATATGGCGTAAAACAAAT
1 TTTTTTCAATATGGCGTAAAACAAAT
4627429 TTTTTT
1 TTTTTT
4627435 TTTTCAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (26 bp):
TTTTTTCAATATGGCGTAAAACAAAT
Found at i:4627438 original size:30 final size:29
Alignment explanation
Indices: 4627404--4627465 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
4627394 ATAATAACTG
* *
4627404 TTTTTCAATATGGCGTAAAACAAATTTTTT
1 TTTTTCAAAATGACGTAAAAC-AATTTTTT
**
4627434 TTTTTCAAAATGACGTGTAACAATTTTTT
1 TTTTTCAAAATGACGTAAAACAATTTTTT
4627463 TTT
1 TTT
4627466 CAACATGATG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.50
Consensus pattern (29 bp):
TTTTTCAAAATGACGTAAAACAATTTTTT
Found at i:4627460 original size:27 final size:27
Alignment explanation
Indices: 4627430--4627494 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
4627420 AAAACAAATT
4627430 TTTTTTTTTCAAAATGACGTGTAACAA
1 TTTTTTTTTCAAAATGACGTGTAACAA
* *
4627457 TTTTTTTTTCAACATGATGTGTAACAA
1 TTTTTTTTTCAAAATGACGTGTAACAA
*
4627484 TATTTTTTTCA
1 TTTTTTTTTCA
4627495 TGTGCGCTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (27 bp):
TTTTTTTTTCAAAATGACGTGTAACAA
Found at i:4627940 original size:27 final size:27
Alignment explanation
Indices: 4627883--4628157 Score: 228
Period size: 28 Copynumber: 10.0 Consensus size: 27
4627873 CATTATGATC
* *
4627883 TGTAATAACTAAATTTTTCAATATGGCG
1 TGTAATAACTAAA-TTTTCAACATGACG
* * * *
4627911 TGTAATAACTAAATCTTCAATATAATG
1 TGTAATAACTAAATTTTCAACATGACG
* *
4627938 TGTAATAATTAAATTTTTCAACATGATG
1 TGTAATAACTAAA-TTTTCAACATGACG
* * * *
4627966 TATAACACCTAAATTTTCAACATGACA
1 TGTAATAACTAAATTTTCAACATGACG
* * *
4627993 TGTAACAACTAAATTTTAAACATAACG
1 TGTAATAACTAAATTTTCAACATGACG
* *
4628020 TGTAATAACT-AATCTTCAACATGACA
1 TGTAATAACTAAATTTTCAACATGACG
* * *
4628046 TGTAATAATTACATTTTTCAACATGATG
1 TGTAATAACTA-AATTTTCAACATGACG
* * * * *
4628074 TGTAACAACTATATTTTTTAACATAACA
1 TGTAATAACTA-AATTTTCAACATGACG
* * *
4628102 TGTAACAACTATATTTTTTAACATGACG
1 TGTAATAACTA-AATTTTCAACATGACG
* *
4628130 TGTAACAATTAAATTTTCAACATGACG
1 TGTAATAACTAAATTTTCAACATGACG
4628157 T
1 T
4628158 ATAAAAATTA
Statistics
Matches: 203, Mismatches: 41, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
26 21 0.10
27 80 0.39
28 102 0.50
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.37
Consensus pattern (27 bp):
TGTAATAACTAAATTTTCAACATGACG
Found at i:4627951 original size:55 final size:55
Alignment explanation
Indices: 4627883--4628155 Score: 271
Period size: 55 Copynumber: 5.0 Consensus size: 55
4627873 CATTATGATC
* * * * * **
4627883 TGTAATAACTAAATTTTTCAATATGGCGTGTAATAACTAAATCTTCAATATAATG
1 TGTAATAACTAAATTTTTCAACATGACGTGTAACAACTAAATCTTCAACATGACA
* * * * *
4627938 TGTAATAATTAAATTTTTCAACATGATGTATAACACCTAAATTTTCAACATGACA
1 TGTAATAACTAAATTTTTCAACATGACGTGTAACAACTAAATCTTCAACATGACA
* * * *
4627993 TGTAACAACTAAA-TTTTAAACATAACGTGTAATAACT-AATCTTCAACATGACA
1 TGTAATAACTAAATTTTTCAACATGACGTGTAACAACTAAATCTTCAACATGACA
* * * * * * *
4628046 TGTAATAATTACATTTTTCAACATGATGTGTAACAACTATATTTTTTAACATAACA
1 TGTAATAACTAAATTTTTCAACATGACGTGTAACAACTA-AATCTTCAACATGACA
* * * * *
4628102 TGTAACAACTATATTTTTTAACATGACGTGTAACAATTAAATTTTCAACATGAC
1 TGTAATAACTAAATTTTTCAACATGACGTGTAACAACTAAATCTTCAACATGAC
4628156 GTATAAAAAT
Statistics
Matches: 174, Mismatches: 41, Indels: 6
0.79 0.19 0.03
Matches are distributed among these distances:
53 25 0.14
54 38 0.22
55 66 0.38
56 45 0.26
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (55 bp):
TGTAATAACTAAATTTTTCAACATGACGTGTAACAACTAAATCTTCAACATGACA
Found at i:4628023 original size:82 final size:82
Alignment explanation
Indices: 4627883--4628244 Score: 287
Period size: 82 Copynumber: 4.4 Consensus size: 82
4627873 CATTATGATC
* * * * * * * * ** * *
4627883 TGTAATAACTAAATTTTTCAATATGGCGTGTAATAACTAAATCTTCAATATAATGTGTAATAATT
1 TGTAACAATTAAA-TTTTCAACATGACGTGTAACAACTAAATTTTTAACATAACATGTAACAACT
*
4627948 AAATTTTTCAACATGATG
65 AAATTTTTCAACATGACG
* ** * * * *
4627966 TATAACACCTAAATTTTCAACATGACATGTAACAACTAAATTTTAAACATAACGTGTAATAACT-
1 TGTAACAATTAAATTTTCAACATGACGTGTAACAACTAAATTTTTAACATAACATGTAACAACTA
* *
4628030 AA-TCTTCAACATGACA
66 AATTTTTCAACATGACG
* * * *
4628046 TGTAATAATTACATTTTTCAACATGATGTGTAACAACTATATTTTTTAACATAACATGTAACAAC
1 TGTAACAATTA-AATTTTCAACATGACGTGTAACAACTA-AATTTTTAACATAACATGTAACAAC
* *
4628111 TATATTTTTTAACATGACG
64 TAAATTTTTCAACATGACG
* * * * * ** *
4628130 TGTAACAATTAAATTTTCAACATGACGTATAAAAATTAATTTTTTAATATGGCATGTAACAATTA
1 TGTAACAATTAAATTTTCAACATGACGTGTAACAACTAAATTTTTAACATAACATGTAACAACTA
* * * **
4628195 CATTTTTCGATATGGTG
66 AATTTTTCAACATGACG
* * *
4628212 TTTAACAATTAAATTTTCAACATAACATGTAAC
1 TGTAACAATTAAATTTTCAACATGACGTGTAAC
4628245 GATTACATTT
Statistics
Matches: 224, Mismatches: 51, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
80 18 0.08
81 26 0.12
82 126 0.56
83 33 0.15
84 21 0.09
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.38
Consensus pattern (82 bp):
TGTAACAATTAAATTTTCAACATGACGTGTAACAACTAAATTTTTAACATAACATGTAACAACTA
AATTTTTCAACATGACG
Found at i:4628118 original size:56 final size:54
Alignment explanation
Indices: 4627883--4628202 Score: 237
Period size: 55 Copynumber: 5.8 Consensus size: 54
4627873 CATTATGATC
* * * * * * * * **
4627883 TGTAATAACTAAATTTTTCAATATGGCGTGTAATAACTAAATCTTCAATATAATG
1 TGTAACAACT-AATTTTTCAACATGACGTGTAACAACTAATTTTTCAACATGACA
* * * * * *
4627938 TGTAATAATTAAATTTTTCAACATGATGTATAACACCTAAATTTTCAACATGACA
1 TGTAACAACT-AATTTTTCAACATGACGTGTAACAACTAATTTTTCAACATGACA
* * * * *
4627993 TGTAACAACTAAATTTTAAACATAACGTGTAATAACTAA-TCTTCAACATGACA
1 TGTAACAACTAATTTTTCAACATGACGTGTAACAACTAATTTTTCAACATGACA
* * * * *
4628046 TGTAATAATTACATTTTTCAACATGATGTGTAACAACTATATTTTTTAACATAACA
1 TGTAACAACTA-ATTTTTCAACATGACGTGTAACAACTA-ATTTTTCAACATGACA
* * * *
4628102 TGTAACAACTATATTTTTTAACATGACGTGTAACAATTAAATTTTCAACATGACG
1 TGTAACAACTA-ATTTTTCAACATGACGTGTAACAACTAATTTTTCAACATGACA
* * * * * * * *
4628157 TATAAAAATTAATTTTTTAATATGGCATGTAACAATTACATTTTTC
1 TGTAACAACTAATTTTTCAACATGACGTGTAACAACTA-ATTTTTC
4628203 GATATGGTGT
Statistics
Matches: 212, Mismatches: 49, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
53 22 0.10
54 68 0.32
55 78 0.37
56 44 0.21
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (54 bp):
TGTAACAACTAATTTTTCAACATGACGTGTAACAACTAATTTTTCAACATGACA
Found at i:4628166 original size:27 final size:27
Alignment explanation
Indices: 4627883--4628263 Score: 242
Period size: 27 Copynumber: 13.9 Consensus size: 27
4627873 CATTATGATC
* * * *
4627883 TGTAATAACTAAATTTTTCAATATGGCG
1 TGTAACAATTAAA-TTTTCAACATGACG
* * * * * *
4627911 TGTAATAACTAAATCTTCAATATAATG
1 TGTAACAATTAAATTTTCAACATGACG
* *
4627938 TGTAATAATTAAATTTTTCAACATGATG
1 TGTAACAATTAAA-TTTTCAACATGACG
* ** *
4627966 TATAACACCTAAATTTTCAACATGACA
1 TGTAACAATTAAATTTTCAACATGACG
* * *
4627993 TGTAACAACTAAATTTTAAACATAACG
1 TGTAACAATTAAATTTTCAACATGACG
* * * *
4628020 TGTAATAACT-AATCTTCAACATGACA
1 TGTAACAATTAAATTTTCAACATGACG
* * *
4628046 TGTAATAATTACATTTTTCAACATGATG
1 TGTAACAATTA-AATTTTCAACATGACG
* * * * *
4628074 TGTAACAACTATATTTTTTAACATAACA
1 TGTAACAATTA-AATTTTCAACATGACG
* * *
4628102 TGTAACAACTATATTTTTTAACATGACG
1 TGTAACAATTA-AATTTTCAACATGACG
4628130 TGTAACAATTAAATTTTCAACATGACG
1 TGTAACAATTAAATTTTCAACATGACG
* * * * * * *
4628157 TATAAAAATTAATTTTTTAATATGGCA
1 TGTAACAATTAAATTTTCAACATGACG
* * * **
4628184 TGTAACAATTACATTTTTCGATATGGTG
1 TGTAACAATTA-AATTTTCAACATGACG
* * *
4628212 TTTAACAATTAAATTTTCAACATAACA
1 TGTAACAATTAAATTTTCAACATGACG
* *
4628239 TGTAACGATTACATTTTCAACATGA
1 TGTAACAATTAAATTTTCAACATGA
4628264 TATATAATAA
Statistics
Matches: 283, Mismatches: 66, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
26 21 0.07
27 138 0.49
28 124 0.44
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (27 bp):
TGTAACAATTAAATTTTCAACATGACG
Found at i:4628285 original size:25 final size:24
Alignment explanation
Indices: 4628253--4628301 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
4628243 ACGATTACAT
*
4628253 TTTCAACATGATATATAATAATTA
1 TTTCAACATGATATAAAATAATTA
* *
4628277 TTTCTAACATGGTGTAAAATAATTA
1 TTTC-AACATGATATAAAATAATTA
4628302 AATTTTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (24 bp):
TTTCAACATGATATAAAATAATTA
Found at i:4637859 original size:18 final size:18
Alignment explanation
Indices: 4637845--4637899 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
4637835 CTTTTTGGAT
4637845 AAATATAATTATTTGAAC
1 AAATATAATTATTTGAAC
* *
4637863 AAATATATTTATTTTAA-
1 AAATATAATTATTTGAAC
*
4637880 ACAATATAACTATTTGAAC
1 A-AATATAATTATTTGAAC
4637899 A
1 A
4637900 GACATACTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 1 0.03
18 28 0.93
19 1 0.03
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (18 bp):
AAATATAATTATTTGAAC
Found at i:4645781 original size:23 final size:23
Alignment explanation
Indices: 4645755--4645800 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
4645745 TAGAATAACA
*
4645755 ATTCCTAATTCTATTAAGATAAG
1 ATTCCTAATTATATTAAGATAAG
*
4645778 ATTCCTAATTATATTAGGATAAG
1 ATTCCTAATTATATTAAGATAAG
4645801 GTTATTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (23 bp):
ATTCCTAATTATATTAAGATAAG
Found at i:4648770 original size:64 final size:66
Alignment explanation
Indices: 4648696--4648825 Score: 219
Period size: 65 Copynumber: 2.0 Consensus size: 66
4648686 ATGTGTACAG
*
4648696 TATGTTTTCCTGACT-ATTTGAACATCATTTTCTTATGCTGAATGGTGAA-CTCTTTGCTTGCTA
1 TATGTTTTCCTGACTGATTAGAACATCATTTTCTTATGCTGAATGGTGAACCTCTTTGCTTGCTA
4648759 C
66 C
* *
4648760 TATGTTTTCCTGACTGATTAGAGCATCATTTTCTTTTGCTGAATGGTGAACCTCTTTGCTTGCTA
1 TATGTTTTCCTGACTGATTAGAACATCATTTTCTTATGCTGAATGGTGAACCTCTTTGCTTGCTA
4648825 C
66 C
4648826 ATTGCTTAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 15 0.25
65 31 0.51
66 15 0.25
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.45
Consensus pattern (66 bp):
TATGTTTTCCTGACTGATTAGAACATCATTTTCTTATGCTGAATGGTGAACCTCTTTGCTTGCTA
C
Found at i:4651060 original size:13 final size:13
Alignment explanation
Indices: 4651042--4651087 Score: 65
Period size: 13 Copynumber: 3.4 Consensus size: 13
4651032 CTTATTCATA
*
4651042 TATTTATCGTTAT
1 TATTTATCATTAT
4651055 TATTTATCATTAT
1 TATTTATCATTAT
4651068 TATTTATCATATAT
1 TATTTATCAT-TAT
4651082 ATATTT
1 -TATTT
4651088 TTTTAAAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 22 0.73
14 3 0.10
15 5 0.17
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (13 bp):
TATTTATCATTAT
Found at i:4651270 original size:3 final size:3
Alignment explanation
Indices: 4651253--4651407 Score: 83
Period size: 3 Copynumber: 50.3 Consensus size: 3
4651243 ATTGTTCCAT
4651253 TTA TT- TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TT- TT-
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
4651297 TTA TT- TTA TTA TTA TT- TTA TTTA TTTA TTTA TTA -TA TATA TATA
1 TTA TTA TTA TTA TTA TTA TTA -TTA -TTA -TTA TTA TTA T-TA T-TA
* ** * * * *
4651341 TTT TTA GAA ATA -TA TATA GTTGCA TCA TGAA TTA TTA TTA TTG TTA
1 TTA TTA TTA TTA TTA T-TA -TT--A TTA T-TA TTA TTA TTA TTA TTA
4651387 TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
4651408 CATTTGCAAG
Statistics
Matches: 125, Mismatches: 11, Indels: 32
0.74 0.07 0.19
Matches are distributed among these distances:
2 16 0.13
3 77 0.62
4 29 0.23
5 2 0.02
6 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:4651309 original size:31 final size:32
Alignment explanation
Indices: 4651251--4651331 Score: 121
Period size: 31 Copynumber: 2.5 Consensus size: 32
4651241 TAATTGTTCC
4651251 ATTTATTTTATTTATTATTATTATTATTATTATT
1 ATTTA-TTTATTTATTATTATTATTATTATT-TT
*
4651285 A-TTATTTATTTTTTATT-TTATTATTATTTT
1 ATTTATTTATTTATTATTATTATTATTATTTT
4651315 ATTTATTTATTTATTAT
1 ATTTATTTATTTATTAT
4651332 ATATATATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
30 3 0.07
31 25 0.57
32 12 0.27
33 3 0.07
34 1 0.02
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (32 bp):
ATTTATTTATTTATTATTATTATTATTATTTT
Found at i:4651346 original size:31 final size:31
Alignment explanation
Indices: 4651256--4651346 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 31
4651246 GTTCCATTTA
4651256 TTTTATTTA-TTA-TTATTAT-TAT-TATTAT
1 TTTTATTTATTTATTTATTATATATATA-TAT
* *
4651284 TATTATTTATTT-TTTATTTTAT-TAT-TA-
1 TTTTATTTATTTATTTATTATATATATATAT
4651311 TTTTATTTATTTATTTATTATATATATATAT
1 TTTTATTTATTTATTTATTATATATATATAT
4651342 TTTTA
1 TTTTA
4651347 GAAATATATA
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
27 11 0.22
28 19 0.37
29 12 0.24
30 4 0.08
31 5 0.10
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (31 bp):
TTTTATTTATTTATTTATTATATATATATAT
Found at i:4652238 original size:17 final size:17
Alignment explanation
Indices: 4652216--4652248 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4652206 TCCTTTTTCT
4652216 TTTTTG-TTTTGTGTTTG
1 TTTTTGCTTTT-TGTTTG
4652233 TTTTTGCTTTTTGTTT
1 TTTTTGCTTTTTGTTT
4652249 CTGTGGTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.00, C:0.03, G:0.18, T:0.79
Consensus pattern (17 bp):
TTTTTGCTTTTTGTTTG
Found at i:4652542 original size:28 final size:28
Alignment explanation
Indices: 4652470--4652568 Score: 96
Period size: 28 Copynumber: 3.5 Consensus size: 28
4652460 CCCCTTTTAT
*
4652470 TTATTTATTTATTT-TTATATTATTTTATA
1 TTATTTATTTATTTATTATA--ATTTAATA
*
4652499 -T-TTTAGTTTATTTTATTATAATTTAAAA
1 TTATTTA-TTTA-TTTATTATAATTTAATA
* *
4652527 TTATTTATTTATTTATTATTATTTATTA
1 TTATTTATTTATTTATTATAATTTAATA
*
4652555 TTATTTTTTTATTT
1 TTATTTATTTATTT
4652569 TTTTTAAGTG
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
27 4 0.07
28 38 0.64
29 8 0.14
30 9 0.15
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.71
Consensus pattern (28 bp):
TTATTTATTTATTTATTATAATTTAATA
Found at i:4652993 original size:27 final size:27
Alignment explanation
Indices: 4652932--4652994 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
4652922 AGCCAAGAGT
*
4652932 ATTCCAAGC-TGGAAGCGCCTAGGGGT
1 ATTCCAAGCATGGAAGCGCCTAGGGGC
* **
4652958 GTTTTAAGCATGGAAGCG-CTCAGGGGC
1 ATTCCAAGCATGGAAGCGCCT-AGGGGC
4652985 ATTCCAAGCA
1 ATTCCAAGCA
4652995 CAGCAGCATC
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.21
Consensus pattern (27 bp):
ATTCCAAGCATGGAAGCGCCTAGGGGC
Found at i:4653534 original size:21 final size:21
Alignment explanation
Indices: 4653508--4653549 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4653498 GAAAGTGTTC
4653508 ATATTCAATATAAATAAGAGG
1 ATATTCAATATAAATAAGAGG
4653529 ATATTCAATATAAATAAGAGG
1 ATATTCAATATAAATAAGAGG
4653550 TTGAGAGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.05, G:0.14, T:0.29
Consensus pattern (21 bp):
ATATTCAATATAAATAAGAGG
Found at i:4658825 original size:14 final size:13
Alignment explanation
Indices: 4658805--4658838 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
4658795 ATATGCTTAG
*
4658805 TATTATTTGTTAT
1 TATTATTTATTAT
4658818 TAATTATTTATTAT
1 T-ATTATTTATTAT
4658832 TATTATT
1 TATTATT
4658839 GTTTTTAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (13 bp):
TATTATTTATTAT
Found at i:4659226 original size:7 final size:8
Alignment explanation
Indices: 4659214--4659246 Score: 52
Period size: 7 Copynumber: 4.4 Consensus size: 8
4659204 AATCATTTCA
4659214 TTTATT-T
1 TTTATTAT
4659221 TTTATT-T
1 TTTATTAT
4659228 TTTATTAT
1 TTTATTAT
4659236 TTTATTAT
1 TTTATTAT
4659244 TTT
1 TTT
4659247 TACTATCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 13 0.52
8 12 0.48
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTATTAT
Found at i:4659248 original size:17 final size:17
Alignment explanation
Indices: 4659215--4659264 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
4659205 ATCATTTCAT
4659215 TTATTTT-TTATTTTTTA
1 TTATTTTATTA-TTTTTA
4659232 TTATTTTATTATTTTTA
1 TTATTTTATTATTTTTA
* *
4659249 CTATCATTATTATTTT
1 TTAT-TTTATTATTTT
4659265 CTGATTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 16 0.55
18 13 0.45
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATTTTATTATTTTTA
Found at i:4660012 original size:8 final size:8
Alignment explanation
Indices: 4659999--4660028 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
4659989 ACTAGTTTTC
4659999 TTTTTTGT
1 TTTTTTGT
4660007 TTTTTTGT
1 TTTTTTGT
4660015 TTTTTTGT
1 TTTTTTGT
4660023 TTTTTT
1 TTTTTT
4660029 TATTTCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (8 bp):
TTTTTTGT
Found at i:4660018 original size:9 final size:9
Alignment explanation
Indices: 4660014--4660062 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
4660004 TGTTTTTTTG
*
4660014 TTTTTTTGT
1 TTTTTTTAT
4660023 TTTTTTTAT
1 TTTTTTTAT
**
4660032 TTCATTTAT
1 TTTTTTTAT
4660041 TTTTTTTAT
1 TTTTTTTAT
*
4660050 TTTGTTTCAT
1 TTT-TTTTAT
4660060 TTT
1 TTT
4660063 ATTATAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
9 25 0.76
10 8 0.24
ACGTcount: A:0.10, C:0.04, G:0.04, T:0.82
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:4660043 original size:23 final size:23
Alignment explanation
Indices: 4660016--4660061 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
4660006 TTTTTTTGTT
*
4660016 TTTTTGTTTTTTTTATTTCATTTA
1 TTTTT-TTTATTTTATTTCATTTA
*
4660040 TTTTTTTTATTTTGTTTCATTT
1 TTTTTTTTATTTTATTTCATTT
4660062 TATTATAATT
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:0.11, C:0.04, G:0.04, T:0.80
Consensus pattern (23 bp):
TTTTTTTTATTTTATTTCATTTA
Found at i:4660390 original size:43 final size:43
Alignment explanation
Indices: 4660322--4660406 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
4660312 CTTGGCAATG
*
4660322 CCCTCACTTAACAAATGCGGCTAAGTCTCATAAGCTATCCTTA
1 CCCTCACTTAACAAATGAGGCTAAGTCTCATAAGCTATCCTTA
* *
4660365 CCCTCACTTAACACATGAGGTTAAGTCTCATAAGCTATCCTT
1 CCCTCACTTAACAAATGAGGCTAAGTCTCATAAGCTATCCTT
4660407 GTAGAAAATG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (43 bp):
CCCTCACTTAACAAATGAGGCTAAGTCTCATAAGCTATCCTTA
Found at i:4671384 original size:12 final size:12
Alignment explanation
Indices: 4671367--4671400 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
4671357 GAATGTTACG
4671367 TTACGCAGGCAA
1 TTACGCAGGCAA
4671379 TTACGCAGGCAA
1 TTACGCAGGCAA
4671391 TTACGCAGGC
1 TTACGCAGGC
4671401 CATAGGCGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.18
Consensus pattern (12 bp):
TTACGCAGGCAA
Found at i:4682689 original size:23 final size:24
Alignment explanation
Indices: 4682663--4682708 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
4682653 TGGAAAGTAT
4682663 AAGAAAAAAG-AAAAAAAAAGAGA
1 AAGAAAAAAGCAAAAAAAAAGAGA
*
4682686 AAGAAAAAAGCAAATAAAAAGAG
1 AAGAAAAAAGCAAAAAAAAAGAG
4682709 GCTCGCGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.02
Consensus pattern (24 bp):
AAGAAAAAAGCAAAAAAAAAGAGA
Found at i:4693660 original size:138 final size:137
Alignment explanation
Indices: 4693494--4693742 Score: 419
Period size: 138 Copynumber: 1.8 Consensus size: 137
4693484 AATCAGAGGC
* ** *
4693494 TACTTTTGCAAAGTTGAAACAATTCAAATTATTGTGTTTTTATTAGATTTATTCTGTCCTAATAA
1 TACTTATGCAAAGCCGAAACAATTCAAATTATTGTGTTTTTATTAGATTTATTCAGTCCTAATAA
4693559 -TTTTCCCCTTTTTTATTATCGATTGTTTTTTCTTAAACAGAAAACATTTGATAGTAGATTCAGA
66 TTTTTCCCC--TTTTATTATCGATTGTTTTTTCTTAAACAGAAAACATTTGATAGTAGATTCAGA
4693623 GGCTACTTT
129 GGCTACTTT
4693632 TACTTATGCAAAGCCGAAACAATTCAAATTATTGTGTTTTTATTAGATTTATTCAGTCCTAATAA
1 TACTTATGCAAAGCCGAAACAATTCAAATTATTGTGTTTTTATTAGATTTATTCAGTCCTAATAA
* *
4693697 TTTTTCCCCTTTTATTTTCGATTGTTTTTTCTTATACAGAAAACAT
66 TTTTTCCCCTTTTATTATCGATTGTTTTTTCTTAAACAGAAAACAT
4693743 ATGTATGTCC
Statistics
Matches: 104, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
137 35 0.34
138 61 0.59
139 8 0.08
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.46
Consensus pattern (137 bp):
TACTTATGCAAAGCCGAAACAATTCAAATTATTGTGTTTTTATTAGATTTATTCAGTCCTAATAA
TTTTTCCCCTTTTATTATCGATTGTTTTTTCTTAAACAGAAAACATTTGATAGTAGATTCAGAGG
CTACTTT
Found at i:4693995 original size:53 final size:53
Alignment explanation
Indices: 4693932--4694038 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
4693922 CAGGCAAGTA
*
4693932 TTACATTTTACAGCACCGAAAAAATGATAGTTAAATTAAGTGCTTGAGGTTTC
1 TTACATTTTACAGCACCAAAAAAATGATAGTTAAATTAAGTGCTTGAGGTTTC
4693985 TTACATTTTACAGCACCAAAAAAATGATAGTTAAATTAAGTGCTTGAGGTTTC
1 TTACATTTTACAGCACCAAAAAAATGATAGTTAAATTAAGTGCTTGAGGTTTC
4694038 T
1 T
4694039 GGTATGTTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (53 bp):
TTACATTTTACAGCACCAAAAAAATGATAGTTAAATTAAGTGCTTGAGGTTTC
Found at i:4698005 original size:21 final size:20
Alignment explanation
Indices: 4697981--4698020 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4697971 TGATGTTTTA
*
4697981 TCATCTGATCATTTCTTTAAT
1 TCATCTGAAC-TTTCTTTAAT
*
4698002 TCATTTGAACTTTCTTTAA
1 TCATCTGAACTTTCTTTAA
4698021 AATACTATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.25, C:0.17, G:0.05, T:0.53
Consensus pattern (20 bp):
TCATCTGAACTTTCTTTAAT
Found at i:4699154 original size:32 final size:32
Alignment explanation
Indices: 4699111--4699174 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
4699101 ATCATTGGTT
4699111 CAATGCATGCCTATATTTGAGTGATGAAGAGC
1 CAATGCATGCCTATATTTGAGTGATGAAGAGC
* * *
4699143 CAATGCGTGCCTCTGTTTGAGTGATGAAGAGC
1 CAATGCATGCCTATATTTGAGTGATGAAGAGC
4699175 ACATCCCACC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (32 bp):
CAATGCATGCCTATATTTGAGTGATGAAGAGC
Found at i:4705979 original size:2 final size:2
Alignment explanation
Indices: 4705968--4706038 Score: 128
Period size: 2 Copynumber: 36.5 Consensus size: 2
4705958 AAGAGATAAT
4705968 TA TA TA -A TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4706008 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4706039 GAGTACTTGC
Statistics
Matches: 67, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 65 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4706647 original size:17 final size:17
Alignment explanation
Indices: 4706627--4706666 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
4706617 ATATTTTGAT
* *
4706627 ATAAAGATAATTTTTAG
1 ATAAAAATAATTTATAG
4706644 ATAAAAATAATTTATAG
1 ATAAAAATAATTTATAG
4706661 A-AAAAA
1 ATAAAAA
4706667 GTTTCAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (17 bp):
ATAAAAATAATTTATAG
Found at i:4722981 original size:16 final size:16
Alignment explanation
Indices: 4722929--4722983 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
4722919 ACTATTAGAT
4722929 ATTGGTTCCATAGTTA
1 ATTGGTTCCATAGTTA
*** *
4722945 ATTGGCATGAGATACTTA
1 ATTGG--TTCCATAGTTA
4722963 ATTGGTTCCATAGTTA
1 ATTGGTTCCATAGTTA
4722979 ATTGG
1 ATTGG
4722984 GCTGTGGTTG
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
16 17 0.59
18 12 0.41
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (16 bp):
ATTGGTTCCATAGTTA
Found at i:4725800 original size:14 final size:15
Alignment explanation
Indices: 4725775--4725811 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
4725765 GTATACAATA
4725775 GAAGGAAAGAAAGAG
1 GAAGGAAAGAAAGAG
4725790 GAAGG-AAGAAAGA-
1 GAAGGAAAGAAAGAG
4725803 -AAGGAAAGA
1 GAAGGAAAGA
4725812 TTCAAAGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.19
13 4 0.19
14 8 0.38
15 5 0.24
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (15 bp):
GAAGGAAAGAAAGAG
Found at i:4728058 original size:2 final size:2
Alignment explanation
Indices: 4728053--4728079 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4728043 TCTTTCTGCA
4728053 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
4728080 ACTTTTAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:4734937 original size:26 final size:25
Alignment explanation
Indices: 4734881--4734937 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
4734871 ACTCTGGATA
* * *
4734881 ATAAAATAACTGAGAATATATTTCC
1 ATAAAACAACTGAAAACATATTTCC
* *
4734906 AGAAAACAACTGAAAACATATTTTC
1 ATAAAACAACTGAAAACATATTTCC
4734931 ATTAAAA
1 A-TAAAA
4734938 ATTATTCGAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (25 bp):
ATAAAACAACTGAAAACATATTTCC
Found at i:4737425 original size:13 final size:13
Alignment explanation
Indices: 4737407--4737439 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4737397 AAACAAAAAT
*
4737407 TCATGGTTAACCA
1 TCATGGCTAACCA
4737420 TCATGGCTAACCA
1 TCATGGCTAACCA
4737433 TCATGGC
1 TCATGGC
4737440 ATTTCCATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (13 bp):
TCATGGCTAACCA
Found at i:4737643 original size:58 final size:58
Alignment explanation
Indices: 4737576--4737692 Score: 207
Period size: 58 Copynumber: 2.0 Consensus size: 58
4737566 CATTGTGGTT
* *
4737576 CCTATTTTATTGTTAGTGGTAGTTTTCCATTTCATGTTGTTGGAGGTTGTGTCTCCAC
1 CCTATTTTATTGTTAGTGGTAGTTTTCCATTTCATGTTATTGGAGGTTATGTCTCCAC
*
4737634 CCTATTTTATTGTTAGTGGTAGTTTTCTATTTCATGTTATTGGAGGTTATGTCTCCAC
1 CCTATTTTATTGTTAGTGGTAGTTTTCCATTTCATGTTATTGGAGGTTATGTCTCCAC
4737692 C
1 C
4737693 TTTCCACTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.15, C:0.15, G:0.21, T:0.49
Consensus pattern (58 bp):
CCTATTTTATTGTTAGTGGTAGTTTTCCATTTCATGTTATTGGAGGTTATGTCTCCAC
Found at i:4741926 original size:21 final size:21
Alignment explanation
Indices: 4741902--4741943 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4741892 ACAGACAAAC
4741902 ACTTTCACAAAGCAAGCATAA
1 ACTTTCACAAAGCAAGCATAA
4741923 ACTTTCACAAAGCAAGCATAA
1 ACTTTCACAAAGCAAGCATAA
4741944 TTTTGCAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.24, G:0.10, T:0.19
Consensus pattern (21 bp):
ACTTTCACAAAGCAAGCATAA
Found at i:4746094 original size:20 final size:20
Alignment explanation
Indices: 4746069--4746158 Score: 73
Period size: 20 Copynumber: 4.7 Consensus size: 20
4746059 GTTTAACATG
4746069 ATTAAATAAAAATATTTATA
1 ATTAAATAAAAATATTTATA
*
4746089 ATTAAAT-ATAAT-TTTATTA
1 ATTAAATAAAAATATTTA-TA
* **
4746108 TTTAAATTTAAA-ATTTATA
1 ATTAAATAAAAATATTTATA
*
4746127 ATT--ATAAAAATAATTATA
1 ATTAAATAAAAATATTTATA
**
4746145 ACAAAATAAAAATA
1 ATTAAATAAAAATA
4746159 ATAATGACAT
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
17 5 0.09
18 11 0.20
19 16 0.30
20 22 0.41
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTAAATAAAAATATTTATA
Found at i:4746256 original size:43 final size:44
Alignment explanation
Indices: 4746209--4746294 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 44
4746199 TTGAACATAT
* *
4746209 ATAATTACATTATACTT-TTTATA-AAATTAAAA-AATTTATTAAA
1 ATAATTA-ATTAAAATTATTTATATAAATTAAAATAATTT-TTAAA
*
4746252 ATAATTATTTAAAATTATTTATATAAATTAAAATAATTTTTAA
1 ATAATTAATTAAAATTATTTATATAAATTAAAATAATTTTTAA
4746295 CTATTTAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
42 6 0.16
43 13 0.35
44 13 0.35
45 5 0.14
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (44 bp):
ATAATTAATTAAAATTATTTATATAAATTAAAATAATTTTTAAA
Found at i:4755655 original size:25 final size:25
Alignment explanation
Indices: 4755621--4755671 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
4755611 ATCGAAGGGT
*
4755621 CAAGAAGGAAGCTGAGAAATTAAAG
1 CAAGAAGGAAGCTGAGAAATCAAAG
4755646 CAAGAAGGAAGCTGAGAAATCAAAG
1 CAAGAAGGAAGCTGAGAAATCAAAG
4755671 C
1 C
4755672 GGCAGATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.51, C:0.12, G:0.27, T:0.10
Consensus pattern (25 bp):
CAAGAAGGAAGCTGAGAAATCAAAG
Found at i:4769209 original size:36 final size:37
Alignment explanation
Indices: 4769137--4769212 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
4769127 TGCGACAATC
* ** *
4769137 AATTTTAGAGATATTATTATCATATTTAAATTTTTTT
1 AATTTTAAAGATATTACGATCATATTTAAATATTTTT
*
4769174 AATTTTAAAGATATTACGATTATA-TTAAATATTTTT
1 AATTTTAAAGATATTACGATCATATTTAAATATTTTT
4769210 AAT
1 AAT
4769213 CAAGATTCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
36 14 0.41
37 20 0.59
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (37 bp):
AATTTTAAAGATATTACGATCATATTTAAATATTTTT
Found at i:4769422 original size:21 final size:22
Alignment explanation
Indices: 4769398--4769455 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
4769388 AAATCAGAAA
*
4769398 AAGAAGGAAAGAAAA-ATAA-AG
1 AAGAA-GAAAGAAAACAAAACAG
*
4769419 AAGAAAAAAATGAAAACAAAACAG
1 AAG-AAGAAA-GAAAACAAAACAG
4769443 AAGAAGAAAGAAA
1 AAGAAGAAAGAAA
4769456 GCACAATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
21 6 0.20
22 11 0.37
23 8 0.27
24 5 0.17
ACGTcount: A:0.74, C:0.03, G:0.19, T:0.03
Consensus pattern (22 bp):
AAGAAGAAAGAAAACAAAACAG
Found at i:4780027 original size:80 final size:81
Alignment explanation
Indices: 4779879--4780029 Score: 250
Period size: 80 Copynumber: 1.9 Consensus size: 81
4779869 TCAACAAATT
* *
4779879 CATCTGCCCTGAGACACTCTGCACCTAAAATTTATATAATTCATCAGAAGCAACCAAGTGAAGAT
1 CATCTGCCCTGAGACACTCTGCACCTAAAATTAATATAATTCATCAGAAGCAACCAAGTGAAAAT
4779944 AATTAATCAATTAATC
66 AATTAATCAATTAATC
* * *
4779960 CATCTGGCCTGAGACTCTCTGCACCTAACATTAATA-AATTCATCAGAAGCAACCAAGTGAAAAT
1 CATCTGCCCTGAGACACTCTGCACCTAAAATTAATATAATTCATCAGAAGCAACCAAGTGAAAAT
4780024 AATTAA
66 AATTAA
4780030 ACAAATAGTG
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
80 33 0.51
81 32 0.49
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.26
Consensus pattern (81 bp):
CATCTGCCCTGAGACACTCTGCACCTAAAATTAATATAATTCATCAGAAGCAACCAAGTGAAAAT
AATTAATCAATTAATC
Found at i:4784233 original size:3 final size:3
Alignment explanation
Indices: 4784227--4784253 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4784217 GTAATTAGCT
4784227 TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG
4784254 GTGAAGGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TAG
Found at i:4788289 original size:17 final size:19
Alignment explanation
Indices: 4788252--4788293 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
4788242 CATTCAAGTC
*
4788252 ATATTCAAACGTATAACAT
1 ATATTCAAACATATAACAT
*
4788271 ATATTCAAACATATAATAT
1 ATATTCAAACATATAACAT
4788290 ATAT
1 ATAT
4788294 ATATATATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (19 bp):
ATATTCAAACATATAACAT
Found at i:4789276 original size:2 final size:2
Alignment explanation
Indices: 4789269--4789310 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
4789259 AATCATATTC
*
4789269 AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4789311 GTATGTGTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:4797653 original size:3 final size:3
Alignment explanation
Indices: 4797645--4797683 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
4797635 CACGTAAACC
4797645 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4797684 GTTGTTATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4808003 original size:13 final size:14
Alignment explanation
Indices: 4807977--4808013 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
4807967 AAAATAAATT
4807977 TTAAT-TATATATA
1 TTAATATATATATA
4807990 TTAATATATA-ATA
1 TTAATATATATATA
*
4808003 TTTATATATAT
1 TTAATATATAT
4808014 TTTTTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTAATATATATATA
Found at i:4808099 original size:22 final size:22
Alignment explanation
Indices: 4808049--4808098 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
4808039 TATACATTTA
*
4808049 ATATTTTCATTTCTTCATTTTT
1 ATATTTTCAATTCTTCATTTTT
4808071 ATATTTTCAATTCTT-ATTTTT
1 ATATTTTCAATTCTTCATTTTT
*
4808092 TTATTTT
1 ATATTTT
4808099 TTTTGTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (22 bp):
ATATTTTCAATTCTTCATTTTT
Found at i:4808264 original size:17 final size:19
Alignment explanation
Indices: 4808232--4808267 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
4808222 TTTTATGACT
4808232 TTTTTACATAATTTTTTTA
1 TTTTTACATAATTTTTTTA
4808251 TTTTTA-AT-ATTTTTTTA
1 TTTTTACATAATTTTTTTA
4808268 CTTTGTTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTTACATAATTTTTTTA
Found at i:4810310 original size:9 final size:9
Alignment explanation
Indices: 4810296--4810339 Score: 70
Period size: 9 Copynumber: 4.9 Consensus size: 9
4810286 ATGCTGCTGC
4810296 TGCTGATGT
1 TGCTGATGT
* *
4810305 TCCTGATGC
1 TGCTGATGT
4810314 TGCTGATGT
1 TGCTGATGT
4810323 TGCTGATGT
1 TGCTGATGT
4810332 TGCTGATG
1 TGCTGATG
4810340 CTTCTTTCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.11, C:0.16, G:0.32, T:0.41
Consensus pattern (9 bp):
TGCTGATGT
Found at i:4810326 original size:27 final size:27
Alignment explanation
Indices: 4810287--4810341 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
4810277 AGGTCATCGA
*
4810287 TGCTGCTGCTGCTGATGTTCCTGATGC
1 TGCTGATGCTGCTGATGTTCCTGATGC
* *
4810314 TGCTGATGTTGCTGATGTTGCTGATGC
1 TGCTGATGCTGCTGATGTTCCTGATGC
4810341 T
1 T
4810342 TCTTTCTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.09, C:0.20, G:0.31, T:0.40
Consensus pattern (27 bp):
TGCTGATGCTGCTGATGTTCCTGATGC
Found at i:4848858 original size:7 final size:7
Alignment explanation
Indices: 4848844--4848885 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
4848834 CGCGCATAGG
4848844 TGCAGAC
1 TGCAGAC
*
4848851 TCCAGAC
1 TGCAGAC
4848858 TGCAGAC
1 TGCAGAC
4848865 TGCAGAC
1 TGCAGAC
*
4848872 TGCAGAT
1 TGCAGAC
4848879 TGCAGAC
1 TGCAGAC
4848886 ACCGCCATGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.17
Consensus pattern (7 bp):
TGCAGAC
Found at i:4849353 original size:48 final size:47
Alignment explanation
Indices: 4849282--4849377 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 47
4849272 AACTTCTAAA
*
4849282 TGGCAGGTATCAAAAATATATATATATATATATATATTTAGTTTTTT
1 TGGCAGGTATCAAAAATATATATATATATATATATATATAGTTTTTT
4849329 NTGGCAGGTATACAAAAATA-ATATATATATATATATATATAGTTTTTT
1 -TGGCAGGTAT-CAAAAATATATATATATATATATATATATAGTTTTTT
4849377 T
1 T
4849378 TTCAAATGGA
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
47 1 0.02
48 37 0.80
49 8 0.17
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.45
Consensus pattern (47 bp):
TGGCAGGTATCAAAAATATATATATATATATATATATATAGTTTTTT
Found at i:4849706 original size:50 final size:50
Alignment explanation
Indices: 4849625--4849719 Score: 111
Period size: 50 Copynumber: 1.9 Consensus size: 50
4849615 TCCTTACCAG
*
4849625 AAAGAAAAACGTTTAAACATTTTGAGCATTTTAAAGTAGTTTTTGATATAC
1 AAAGAAAAACGTTTAAACATTTTGAGCATTTTAAAGCA-TTTTTGATATAC
* * * * * *
4849676 AAAGAAAATC-TTTGAACGTTTTGCGTATTTTTAAGCATTTTTGA
1 AAAGAAAAACGTTTAAACATTTTGAGCATTTTAAAGCATTTTTGA
4849720 GTGATTGTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
49 7 0.19
50 21 0.57
51 9 0.24
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (50 bp):
AAAGAAAAACGTTTAAACATTTTGAGCATTTTAAAGCATTTTTGATATAC
Found at i:4849715 original size:60 final size:61
Alignment explanation
Indices: 4849644--4849768 Score: 146
Period size: 60 Copynumber: 2.1 Consensus size: 61
4849634 CGTTTAAACA
* * * *
4849644 TTTTGAGCATTTTAAAGT-AGTTTTTGATATACAAAG-AAAATCTTTGAACGTTTTGCGTAT
1 TTTTAAGCATTTTAAAGTGA-TTGTTGATATACAAAGAAAAATCTTTGAACATTTTGAGTAT
** ** *
4849704 TTTTAAGCATTTTTGAGTGATTGTTGATATATGAAGAAAAATTTTTGAACATTTTGAGTAT
1 TTTTAAGCATTTTAAAGTGATTGTTGATATACAAAGAAAAATCTTTGAACATTTTGAGTAT
4849765 TTTT
1 TTTT
4849769 TGTCAAGTAG
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
60 28 0.52
61 26 0.48
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (61 bp):
TTTTAAGCATTTTAAAGTGATTGTTGATATACAAAGAAAAATCTTTGAACATTTTGAGTAT
Found at i:4849901 original size:22 final size:22
Alignment explanation
Indices: 4849868--4849931 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
4849858 GTTTTTGTGG
4849868 TTTTT-GGACATTGTGTGACTAA
1 TTTTTAGG-CATTGTGTGACTAA
* *
4849890 TTTTTAGGCATTGCGTGACTAG
1 TTTTTAGGCATTGTGTGACTAA
* * *
4849912 TTTTAAAGTATTGTGTGACT
1 TTTTTAGGCATTGTGTGACT
4849932 GGTTGATATG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 33 0.94
23 2 0.06
ACGTcount: A:0.22, C:0.09, G:0.23, T:0.45
Consensus pattern (22 bp):
TTTTTAGGCATTGTGTGACTAA
Found at i:4849952 original size:23 final size:22
Alignment explanation
Indices: 4849926--4849976 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
4849916 AAAGTATTGT
*
4849926 GTGACTGGTTGATATGGTATTAC
1 GTGACTAGTTGATA-GGTATTAC
* *
4849949 GTGATTAGTTGATAGGTATTGC
1 GTGACTAGTTGATAGGTATTAC
4849971 GTGACT
1 GTGACT
4849977 TGTTAGTAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.22, C:0.08, G:0.31, T:0.39
Consensus pattern (22 bp):
GTGACTAGTTGATAGGTATTAC
Found at i:4850020 original size:46 final size:45
Alignment explanation
Indices: 4849895--4850038 Score: 150
Period size: 45 Copynumber: 3.2 Consensus size: 45
4849885 ACTAATTTTT
* * * *
4849895 AGGCATTGCGTGACTAGTTTTAAAGTATTGTGTGACTGGTT-GATA
1 AGGCATTGCGTGACTTGTTGTAAAGTATTGCGTGACTAGTTAG-TA
* * * * *
4849940 TGGTATTACGTGA-TTAGTTG-ATAGGTATTGCGTGACTTGTTAGTA
1 AGGCATTGCGTGACTT-GTTGTA-AAGTATTGCGTGACTAGTTAGTA
4849985 AGGCATTGCGTGACTTGTTAGTAAAGTATTGCGTGACTAGTTAGTA
1 AGGCATTGCGTGACTTGTT-GTAAAGTATTGCGTGACTAGTTAGTA
4850031 AGGCATTG
1 AGGCATTG
4850039 TATGACTTAA
Statistics
Matches: 80, Mismatches: 13, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
44 2 0.03
45 44 0.55
46 33 0.41
47 1 0.01
ACGTcount: A:0.24, C:0.09, G:0.29, T:0.38
Consensus pattern (45 bp):
AGGCATTGCGTGACTTGTTGTAAAGTATTGCGTGACTAGTTAGTA
Found at i:4850045 original size:23 final size:23
Alignment explanation
Indices: 4849966--4850038 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
4849956 GTTGATAGGT
4849966 ATTGCGTGACTTGTTAGTAAGGC
1 ATTGCGTGACTTGTTAGTAAGGC
* *
4849989 ATTGCGTGACTTGTTAGTAAAGT
1 ATTGCGTGACTTGTTAGTAAGGC
*
4850012 ATTGCGTGACTAGTTAGTAAGGC
1 ATTGCGTGACTTGTTAGTAAGGC
4850035 ATTG
1 ATTG
4850039 TATGACTTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.25, C:0.11, G:0.29, T:0.36
Consensus pattern (23 bp):
ATTGCGTGACTTGTTAGTAAGGC
Found at i:4850092 original size:22 final size:22
Alignment explanation
Indices: 4850067--4850128 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 22
4850057 TAAAAATTAG
*
4850067 TTACGCAATGTCTAAAAACCAA
1 TTACGCAATGACTAAAAACCAA
* * *
4850089 TTACACAAT-ACTTAAAACTAA
1 TTACGCAATGACTAAAAACCAA
* * *
4850110 TCACGTAATGCCTAAAAAC
1 TTACGCAATGACTAAAAAC
4850129 TTAGTCACAC
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
21 15 0.50
22 15 0.50
ACGTcount: A:0.47, C:0.23, G:0.06, T:0.24
Consensus pattern (22 bp):
TTACGCAATGACTAAAAACCAA
Found at i:4850838 original size:19 final size:20
Alignment explanation
Indices: 4850804--4850841 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
4850794 AGTCATATCA
*
4850804 AAAATTGATTAAAAATAATT
1 AAAATTGATAAAAAATAATT
4850824 AAAATT-ATAAAAAATAAT
1 AAAATTGATAAAAAATAAT
4850842 ATTTTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (20 bp):
AAAATTGATAAAAAATAATT
Found at i:4861040 original size:2 final size:2
Alignment explanation
Indices: 4861035--4861068 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4861025 TCTCTGTTTA
4861035 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4861069 TAATAGATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4879198 original size:53 final size:53
Alignment explanation
Indices: 4879135--4879242 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
4879125 AAGATTTGGA
4879135 CTCATGCACCCCATAATCTTAATTACAAGTTCTTACTGCCTGGCTGGCAGATG
1 CTCATGCACCCCATAATCTTAATTACAAGTTCTTACTGCCTGGCTGGCAGATG
4879188 CTCATGCACCCCATAATCTTAATTACAAGTTCTTACTGCCTGGCTGGCAGATG
1 CTCATGCACCCCATAATCTTAATTACAAGTTCTTACTGCCTGGCTGGCAGATG
4879241 CT
1 CT
4879243 TAACTTGTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.31
Consensus pattern (53 bp):
CTCATGCACCCCATAATCTTAATTACAAGTTCTTACTGCCTGGCTGGCAGATG
Found at i:4885708 original size:12 final size:12
Alignment explanation
Indices: 4885690--4885719 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4885680 ATCTCTCTTG
4885690 AAGTTCCAGTTC
1 AAGTTCCAGTTC
*
4885702 CAGTTCCAGTTC
1 AAGTTCCAGTTC
4885714 AAGTTC
1 AAGTTC
4885720 AAGCTAAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (12 bp):
AAGTTCCAGTTC
Found at i:4894711 original size:2 final size:2
Alignment explanation
Indices: 4894704--4894740 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
4894694 GATAATTGCA
*
4894704 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT NT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4894741 TTATCCACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:4904560 original size:24 final size:24
Alignment explanation
Indices: 4904528--4904575 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
4904518 CATATACCAG
4904528 TGACAGAACCAGTGACAACATTAT
1 TGACAGAACCAGTGACAACATTAT
* *
4904552 TGACGGAACCAGTGACAACTTTAT
1 TGACAGAACCAGTGACAACATTAT
4904576 CACATTGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACAGAACCAGTGACAACATTAT
Found at i:4914321 original size:2 final size:2
Alignment explanation
Indices: 4914314--4914339 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4914304 ACAAGCGAGG
4914314 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
4914340 ATGGGTCTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4931769 original size:31 final size:29
Alignment explanation
Indices: 4931714--4931772 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
4931704 TAATAGTGTT
4931714 AAAATAAAAAATTAAAATTAACAAATTAA
1 AAAATAAAAAATTAAAATTAACAAATTAA
*
4931743 AAAATATAAAAACTT-AATTTATACAAATTA
1 AAAATA-AAAAA-TTAAAATTA-ACAAATTA
4931773 TTATATAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 6 0.23
30 10 0.38
31 10 0.38
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (29 bp):
AAAATAAAAAATTAAAATTAACAAATTAA
Found at i:4932199 original size:19 final size:19
Alignment explanation
Indices: 4932167--4932203 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4932157 ATCCAACATC
4932167 AAATAAGACCAAATTATTG
1 AAATAAGACCAAATTATTG
* *
4932186 AAATAGGACTAAATTATT
1 AAATAAGACCAAATTATT
4932204 TTTTTATTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (19 bp):
AAATAAGACCAAATTATTG
Found at i:4945531 original size:31 final size:32
Alignment explanation
Indices: 4945496--4945558 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
4945486 TATTTAATTT
4945496 ATCATTA-ATTTTTAA-ATAAATAAAATAAAAA
1 ATCATTATA-TTTTAATATAAATAAAATAAAAA
* *
4945527 ATCATTATATTTTAATTTAAATAAAATCAAAA
1 ATCATTATATTTTAATATAAATAAAATAAAAA
4945559 GCTGAGTACT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (32 bp):
ATCATTATATTTTAATATAAATAAAATAAAAA
Found at i:4949433 original size:2 final size:2
Alignment explanation
Indices: 4949428--4949513 Score: 119
Period size: 2 Copynumber: 45.5 Consensus size: 2
4949418 TATTCTATGT
4949428 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
4949468 T- TG TA T- TA T- TN TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4949507 TA TA TA T
1 TA TA TA T
4949514 TGCTGATTAA
Statistics
Matches: 77, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
1 5 0.06
2 72 0.94
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4950493 original size:26 final size:26
Alignment explanation
Indices: 4950457--4950515 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
4950447 GATTAATGGG
4950457 AACAAAACAAAGAAGACAAGAGTAGC
1 AACAAAACAAAGAAGACAAGAGTAGC
*
4950483 AACAAAACAAAGAAGACAAGAGTAGT
1 AACAAAACAAAGAAGACAAGAGTAGC
4950509 AACAAAA
1 AACAAAA
4950516 AAAACTGTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.64, C:0.14, G:0.17, T:0.05
Consensus pattern (26 bp):
AACAAAACAAAGAAGACAAGAGTAGC
Found at i:4957172 original size:3 final size:3
Alignment explanation
Indices: 4957164--4957192 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4957154 CAAAGACTTG
4957164 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4957193 AATTCAGGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4959952 original size:22 final size:22
Alignment explanation
Indices: 4959924--4959969 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
4959914 GGCTTCATTG
4959924 TGCTGTCAAAACAACAATAACT
1 TGCTGTCAAAACAACAATAACT
4959946 TGCTGTCAAAACAACAATAACT
1 TGCTGTCAAAACAACAATAACT
4959968 TG
1 TG
4959970 AAATACTGCA
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:0.43, C:0.22, G:0.11, T:0.24
Consensus pattern (22 bp):
TGCTGTCAAAACAACAATAACT
Found at i:4982142 original size:14 final size:15
Alignment explanation
Indices: 4982123--4982155 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4982113 TATAATTAAT
*
4982123 TATTAAT-TAATTAC
1 TATTAATCTAAATAC
4982137 TATTAATCTAAATAC
1 TATTAATCTAAATAC
4982152 TATT
1 TATT
4982156 TATCATTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (15 bp):
TATTAATCTAAATAC
Found at i:4982364 original size:30 final size:30
Alignment explanation
Indices: 4982330--4982423 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
4982320 ATTATTAATA
4982330 ATAAAA-ATTTATTT-GATTCAAAATAAAAAT
1 ATAAAAGA-TTATTTAG-TTCAAAATAAAAAT
*
4982360 ATAAAAGATTATTTAGTTCAAAATAAAAGT
1 ATAAAAGATTATTTAGTTCAAAATAAAAAT
* * * *
4982390 A-CAATGACTTATTTTGTTTAAAAT-AAAAT
1 ATAAAAGA-TTATTTAGTTCAAAATAAAAAT
4982419 ATAAA
1 ATAAA
4982424 GAGTTGATTA
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
29 9 0.17
30 42 0.79
31 2 0.04
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.36
Consensus pattern (30 bp):
ATAAAAGATTATTTAGTTCAAAATAAAAAT
Found at i:5007178 original size:17 final size:17
Alignment explanation
Indices: 5007144--5007179 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5007134 GAAAATTGTA
**
5007144 AAAAATATTTTTTTAAT
1 AAAAATATTTTTAAAAT
5007161 AAAAATATTTTTAAAAT
1 AAAAATATTTTTAAAAT
5007178 AA
1 AA
5007180 TCATCAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAAATATTTTTAAAAT
Found at i:5007862 original size:61 final size:60
Alignment explanation
Indices: 5007786--5007941 Score: 260
Period size: 61 Copynumber: 2.6 Consensus size: 60
5007776 TGTAACATAA
5007786 TTTTTTTAAACATGACGTGTAACAATAATAATTTTTCAATATAACATATAATAATAATAT
1 TTTTTTTAAACATGACGTGTAACAATAATAATTTTTCAATATAACATATAATAATAATAT
* * *
5007846 TTTTTTTAAAACATGACGTGTAATAATAATAATTTTTCAATATGATATATAATAATAATAT
1 TTTTTTT-AAACATGACGTGTAACAATAATAATTTTTCAATATAACATATAATAATAATAT
*
5007907 TTTTTTT-AACATGACGTGTAACAATAATATTTTTT
1 TTTTTTTAAACATGACGTGTAACAATAATAATTTTT
5007942 TATAACTTGA
Statistics
Matches: 90, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
59 26 0.29
60 7 0.08
61 57 0.63
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.45
Consensus pattern (60 bp):
TTTTTTTAAACATGACGTGTAACAATAATAATTTTTCAATATAACATATAATAATAATAT
Found at i:5007939 original size:29 final size:30
Alignment explanation
Indices: 5007785--5007961 Score: 151
Period size: 29 Copynumber: 5.9 Consensus size: 30
5007775 GTGTAACATA
*
5007785 ATTTTTTTAAACATGACGTGTAACAATAAT
1 ATTTTTTTTAACATGACGTGTAACAATAAT
* * * * * * *
5007815 A-ATTTTTCAATATAACATATAATAATAAT
1 ATTTTTTTTAACATGACGTGTAACAATAAT
*
5007844 ATTTTTTTTAAAACATGACGTGTAATAATAAT
1 ATTTTTTTT--AACATGACGTGTAACAATAAT
* * * ** * *
5007876 A-ATTTTTCAATATGATATATAATAATAAT
1 ATTTTTTTTAACATGACGTGTAACAATAAT
5007905 ATTTTTTTTAACATGACGTGTAACAATAAT
1 ATTTTTTTTAACATGACGTGTAACAATAAT
* *
5007935 ATTTTTTTATAACTTGATGTGTAACAA
1 ATTTTTTT-TAACATGACGTGTAACAA
5007962 CCTTTTTTAA
Statistics
Matches: 114, Mismatches: 28, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
29 40 0.35
30 35 0.31
31 21 0.18
32 18 0.16
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (30 bp):
ATTTTTTTTAACATGACGTGTAACAATAAT
Found at i:5008022 original size:30 final size:31
Alignment explanation
Indices: 5007986--5008044 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
5007976 GACGTATTAC
* *
5007986 ATGTTTTTGTACA-TAATATGTAACAATAAT
1 ATGTTTTTGTAAAGTAACATGTAACAATAAT
*
5008016 ATGTTTTTTTAAAGTAACATGTAACAATA
1 ATGTTTTTGTAAAGTAACATGTAACAATA
5008045 TTTTTTAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
ATGTTTTTGTAAAGTAACATGTAACAATAAT
Found at i:5008039 original size:81 final size:81
Alignment explanation
Indices: 5007923--5008105 Score: 192
Period size: 81 Copynumber: 2.3 Consensus size: 81
5007913 TAACATGACG
** * ** * * *
5007923 TGTAACAATAATATTTTTTTATAACTTGATGTGTAACAACCTTTTTTAA-TGATGACGT-ATTAC
1 TGTAACAATAATATTTTTTTATAAAGTAACATGTAACAACATTTTTTAAGT-ATAACGTGA-AAC
*
5007986 ATGTTTTTGTACATAATA
64 ATGTTTTTATACATAATA
* *
5008004 TGTAACAATAATATGTTTTTT-TAAAGTAACATGTAACAATATTTTTTAAGTATAACGTGAAATA
1 TGTAACAATAATAT-TTTTTTATAAAGTAACATGTAACAACATTTTTTAAGTATAACGTGAAACA
*
5008068 TGTTTTTATACATGATA
65 TGTTTTTATACATAATA
* *
5008085 TATAATAATAATATTTTTTTA
1 TGTAACAATAATATTTTTTTA
5008106 ACATGACATA
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
80 6 0.07
81 70 0.83
82 8 0.10
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (81 bp):
TGTAACAATAATATTTTTTTATAAAGTAACATGTAACAACATTTTTTAAGTATAACGTGAAACAT
GTTTTTATACATAATA
Found at i:5008102 original size:29 final size:30
Alignment explanation
Indices: 5008064--5008120 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
5008054 TATAACGTGA
*
5008064 AATATG-TTTTTATACATGATATATAATAAT
1 AATATGTTTTTTA-ACATGACATATAATAAT
5008094 AATAT-TTTTTTAACATGACATATAATA
1 AATATGTTTTTTAACATGACATATAATA
5008121 TCATGTAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (30 bp):
AATATGTTTTTTAACATGACATATAATAAT
Found at i:5026514 original size:2 final size:2
Alignment explanation
Indices: 5026509--5026606 Score: 92
Period size: 2 Copynumber: 47.5 Consensus size: 2
5026499 ACTTGGTCTC
* *
5026509 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG A- AG AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
5026550 GANT AT AT ACT -T GGT CT CAT CT AT AT AT AT AT AT AT AT AT AT AT
1 -A-T AT AT A-T AT -AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
5026594 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
5026607 AGAAGATGAT
Statistics
Matches: 83, Mismatches: 6, Indels: 14
0.81 0.06 0.14
Matches are distributed among these distances:
1 2 0.02
2 75 0.90
3 5 0.06
4 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:5026951 original size:14 final size:15
Alignment explanation
Indices: 5026927--5026955 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5026917 TTTCTATATA
5026927 TTTTCTTCCTTTTTC
1 TTTTCTTCCTTTTTC
5026942 TTTT-TTCCTTTTTC
1 TTTTCTTCCTTTTTC
5026956 CCTTCTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTCTTCCTTTTTC
Found at i:5048777 original size:53 final size:53
Alignment explanation
Indices: 5048663--5048776 Score: 137
Period size: 51 Copynumber: 2.2 Consensus size: 53
5048653 CACTGCCCCC
* * *
5048663 AAAATTTTTGAAAATTTTTATTATATATTTATATATATTCTAATAGTCCCTTC
1 AAAATTTTTGAAAATTTTTATTATATATATATATATATTCTAATAATCCCTTA
*
5048716 AAAATTTTTG-AAATTATTTATT-TAT-TATATATAT-TTCTAATGAATTCCTTA
1 AAAATTTTTGAAAATT-TTTATTATATATATATATATATTCTAAT-AATCCCTTA
5048767 AAATATTTTT
1 AAA-ATTTTT
5048777 TATTTAATAT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
50 7 0.13
51 17 0.31
52 14 0.26
53 16 0.30
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.53
Consensus pattern (53 bp):
AAAATTTTTGAAAATTTTTATTATATATATATATATATTCTAATAATCCCTTA
Found at i:5049075 original size:12 final size:12
Alignment explanation
Indices: 5049058--5049082 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5049048 TTTTTTTATC
5049058 TTATTTATTTAA
1 TTATTTATTTAA
5049070 TTATTTATTTAA
1 TTATTTATTTAA
5049082 T
1 T
5049083 CATTGTGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTTATTTAA
Found at i:5053301 original size:7 final size:7
Alignment explanation
Indices: 5053289--5053315 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
5053279 TAAAATGGGC
5053289 TGCCTAA
1 TGCCTAA
5053296 TGCCTAA
1 TGCCTAA
5053303 TGCCTAA
1 TGCCTAA
5053310 TGCCTA
1 TGCCTA
5053316 TGTTGTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (7 bp):
TGCCTAA
Found at i:5054155 original size:2 final size:2
Alignment explanation
Indices: 5054148--5054194 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
5054138 CCACATTTAC
5054148 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5054190 A- AT AT
1 AT AT AT
5054195 TCTTGTATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5070818 original size:25 final size:26
Alignment explanation
Indices: 5070790--5070839 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
5070780 TTAAGCTTTA
* *
5070790 TTAGTCAAATGAAA-ACAATCGAATT
1 TTAGGCAAATGAAAGAAAATCGAATT
*
5070815 TTAGGGAAATGAAAGAAAATCGAAT
1 TTAGGCAAATGAAAGAAAATCGAAT
5070840 AATTCCAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.50, C:0.08, G:0.18, T:0.24
Consensus pattern (26 bp):
TTAGGCAAATGAAAGAAAATCGAATT
Found at i:5078990 original size:21 final size:22
Alignment explanation
Indices: 5078966--5079013 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
5078956 TTCAACCTTC
* *
5078966 AGGGCC-ATGTTTTTGTGTCTA
1 AGGGCCAAGGTTTTTGTATCTA
5078987 AGGGCCAAGGTTTTTGTATCTA
1 AGGGCCAAGGTTTTTGTATCTA
5079009 AGGGC
1 AGGGC
5079014 TGTCCATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.19, C:0.15, G:0.31, T:0.35
Consensus pattern (22 bp):
AGGGCCAAGGTTTTTGTATCTA
Done.