Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 240 of 325
Found at i:75296363 original size:29 final size:29
Alignment explanation
Indices: 75296262--75296355 Score: 161
Period size: 29 Copynumber: 3.2 Consensus size: 29
75296252 GTGACGAGAT
*
75296262 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
75296291 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
75296320 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
75296349 CGGCACT
1 TGGCACT
75296356 GGGTGTGCGA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:75296380 original size:58 final size:58
Alignment explanation
Indices: 75296258--75296391 Score: 155
Period size: 58 Copynumber: 2.3 Consensus size: 58
75296248 TACGGTGACG
* * * *
75296258 AGAT-TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
* **
75296315 ATATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGC-ATGCTCGAA
* * *
75296373 GGGTATGGCACTATGTGTG
1 AGATATGGCACTAAGTGTG
75296392 TGGGCTTAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
57 3 0.05
58 60 0.94
59 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
Found at i:75302970 original size:21 final size:18
Alignment explanation
Indices: 75302932--75302986 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 18
75302922 GGAAGAATAA
75302932 AGAAATGAAAAAAAAAAG
1 AGAAATGAAAAAAAAAAG
75302950 AGAATATGAAGAAAAACAAAG
1 AGAA-ATGAA-AAAAA-AAAG
75302971 A-AAA-GAAAAAAAAAAG
1 AGAAATGAAAAAAAAAAG
75302987 TGTTCATTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.12
17 5 0.15
18 7 0.21
19 6 0.18
20 7 0.21
21 5 0.15
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.05
Consensus pattern (18 bp):
AGAAATGAAAAAAAAAAG
Found at i:75304172 original size:29 final size:29
Alignment explanation
Indices: 75304139--75304299 Score: 148
Period size: 29 Copynumber: 5.6 Consensus size: 29
75304129 GTGACGAGAT
*
75304139 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
75304168 TGGCACTAAGTGTGC-ATGCTGGAAATATA
1 TGGCACTAAGTGTGCGA-GCTGGAAATATA
*
75304197 TGGCACTAAGTGTGC-AGCTGGAAAAAATA
1 TGGCACTAAGTGTGCGAGCTGG-AAATATA
* ** * ***
75304226 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* * * ***
75304255 TGGCACTATGTGTGCGGGCT-TAAATGCG
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
75304283 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
75304300 AATCGAGTAT
Statistics
Matches: 109, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
28 23 0.21
29 81 0.74
30 5 0.05
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTGGAAATATA
Found at i:75308750 original size:15 final size:12
Alignment explanation
Indices: 75308713--75308738 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
75308703 TCTTTTAGTT
75308713 ATTATTTTAATA
1 ATTATTTTAATA
75308725 ATTATTTTAATA
1 ATTATTTTAATA
75308737 AT
1 AT
75308739 CTTATATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTATTTTAATA
Found at i:75312596 original size:22 final size:24
Alignment explanation
Indices: 75312569--75312621 Score: 74
Period size: 22 Copynumber: 2.2 Consensus size: 24
75312559 AATTTTAAAA
75312569 TTATAAAAAGA-TTTTATAAA-TT
1 TTATAAAAAGATTTTTATAAAGTT
*
75312591 TTATAAAAATATTTTTATAAAGTTT
1 TTATAAAAAGATTTTTATAAAG-TT
75312616 TTATAA
1 TTATAA
75312622 TTTTTAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 10 0.37
23 9 0.33
25 8 0.30
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (24 bp):
TTATAAAAAGATTTTTATAAAGTT
Found at i:75312620 original size:34 final size:34
Alignment explanation
Indices: 75312575--75312640 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 34
75312565 AAAATTATAA
75312575 AAAGATTTTATAAATTTTATAA-AAA-TATTTTTAT
1 AAAGATTTTAT-AATTTT-TAATAAATTATTTTTAT
*
75312609 AAAGTTTTTATAATTTTTAATAAATTATTTTT
1 AAAGATTTTATAATTTTTAATAAATTATTTTT
75312641 TAGACATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 3 0.10
33 9 0.31
34 17 0.59
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (34 bp):
AAAGATTTTATAATTTTTAATAAATTATTTTTAT
Found at i:75313664 original size:9 final size:9
Alignment explanation
Indices: 75313650--75313691 Score: 77
Period size: 9 Copynumber: 4.8 Consensus size: 9
75313640 TTCTTATATT
75313650 TTTTTTTAC
1 TTTTTTTAC
75313659 TTTTTTTAC
1 TTTTTTTAC
75313668 TTTTTTTAC
1 TTTTTTTAC
75313677 -TTTTTTAC
1 TTTTTTTAC
75313685 TTTTTTT
1 TTTTTTT
75313692 CTTATATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 8 0.25
9 24 0.75
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:75313673 original size:18 final size:17
Alignment explanation
Indices: 75313650--75313691 Score: 75
Period size: 17 Copynumber: 2.4 Consensus size: 17
75313640 TTCTTATATT
75313650 TTTTTTTACTTTTTTTAC
1 TTTTTTTAC-TTTTTTAC
75313668 TTTTTTTACTTTTTTAC
1 TTTTTTTACTTTTTTAC
75313685 TTTTTTT
1 TTTTTTT
75313692 CTTATATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTTTACTTTTTTAC
Found at i:75313776 original size:36 final size:36
Alignment explanation
Indices: 75313707--75313780 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
75313697 ATTTTGTCTC
*
75313707 TTTCTTAGATTTTTTTCTTTTTTAAGTTTTATATTAT
1 TTTCTTAGATTTTTTTCTTATTTAAG-TTTATATTAT
75313744 TTTCTTA-ATTTATTTTGCTTATTTAA-TTTATATTAT
1 TTTCTTAGATTT-TTTT-CTTATTTAAGTTTATATTAT
75313780 T
1 T
75313781 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 15 0.44
37 11 0.32
38 8 0.24
ACGTcount: A:0.22, C:0.05, G:0.04, T:0.69
Consensus pattern (36 bp):
TTTCTTAGATTTTTTTCTTATTTAAGTTTATATTAT
Found at i:75313785 original size:18 final size:17
Alignment explanation
Indices: 75313734--75313781 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
75313724 TTTTTTAAGT
*
75313734 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
* *
75313752 TTTATTTTGCTTATTTAA
1 TTTATATT-ATTATTTAA
75313770 TTTATATTATTA
1 TTTATATTATTA
75313782 ATTTTAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:75313845 original size:21 final size:20
Alignment explanation
Indices: 75313777--75313852 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 20
75313767 TAATTTATAT
* *
75313777 TATTAATTTTAAAAAATTTAA
1 TATT-ATTTTTAAAATTTTAA
* *
75313798 TA-TATATTTAAAATGTTTTA
1 TATTATTTTTAAAAT-TTTAA
*
75313818 TAATATTTTTAAAATTTTAA
1 TATTATTTTTAAAATTTTAA
75313838 TTATTATTTTTAAAA
1 -TATTATTTTTAAAA
75313853 ATATTTTTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 8 0.18
20 11 0.24
21 26 0.58
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (20 bp):
TATTATTTTTAAAATTTTAA
Found at i:75314011 original size:13 final size:13
Alignment explanation
Indices: 75313975--75314013 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
75313965 TTTAATATTT
*
75313975 TATTAATTTTACA
1 TATTAATTTTAAA
75313988 TA-TAATTTTAAA
1 TATTAATTTTAAA
*
75314000 TATTATTTTTAAA
1 TATTAATTTTAAA
75314013 T
1 T
75314014 TCTATATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTAATTTTAAA
Found at i:75314057 original size:2 final size:2
Alignment explanation
Indices: 75314052--75314083 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
75314042 AAAAAAAAAA
75314052 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
75314084 ACTAGTCACA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75314140 original size:18 final size:18
Alignment explanation
Indices: 75314117--75314163 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
75314107 GTGACTATTA
75314117 ATAAATTTAAATATAAAT
1 ATAAATTTAAATATAAAT
*
75314135 ATAAATTTTAA-A-AAAT
1 ATAAATTTAAATATAAAT
*
75314151 ATATA-TTAAATAT
1 ATAAATTTAAATAT
75314164 TATTTTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
15 4 0.17
16 9 0.38
17 1 0.04
18 10 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAATTTAAATATAAAT
Found at i:75314389 original size:26 final size:27
Alignment explanation
Indices: 75314340--75314402 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
75314330 TTTTAAATAC
* * *
75314340 AATTTTTAAATACATTTAAAAAATTAT
1 AATTTTTTAATACATATAAAAAATCAT
*
75314367 AATTTTTTAATA-ATATAAGAAATCAT
1 AATTTTTTAATACATATAAAAAATCAT
*
75314393 AATATTTTAA
1 AATTTTTTAA
75314403 ATATTTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (27 bp):
AATTTTTTAATACATATAAAAAATCAT
Found at i:75314694 original size:18 final size:18
Alignment explanation
Indices: 75314671--75314717 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
75314661 GTGACTATTA
75314671 ATAAATTTAAATATAAAT
1 ATAAATTTAAATATAAAT
75314689 ATAAATTTAAA-A-AAAT
1 ATAAATTTAAATATAAAT
*
75314705 ATATA-TTAAATAT
1 ATAAATTTAAATAT
75314718 TTTTTTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 5 0.19
16 9 0.35
17 1 0.04
18 11 0.42
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAAATTTAAATATAAAT
Found at i:75317705 original size:30 final size:30
Alignment explanation
Indices: 75317669--75317761 Score: 96
Period size: 30 Copynumber: 3.1 Consensus size: 30
75317659 GTCCCAGAGC
*
75317669 AGTTCATATAACCTGGACATAGGTGGTGCG
1 AGTTCATATAACCCGGACATAGGTGGTGCG
* * **
75317699 AGTTCATATCACCCGGACATGGGTGGTTTG
1 AGTTCATATAACCCGGACATAGGTGGTGCG
* * * * *
75317729 AGTTCATATCACTCGGATATAGGCGGTTCG
1 AGTTCATATAACCCGGACATAGGTGGTGCG
75317759 AGT
1 AGT
75317762 CCATTTGACC
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (30 bp):
AGTTCATATAACCCGGACATAGGTGGTGCG
Found at i:75321274 original size:33 final size:32
Alignment explanation
Indices: 75321224--75321297 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 32
75321214 AATGTTTTAT
75321224 AATATATATTTTATAAATATTAAAAATATATTTTC
1 AATAT-TATTTTATAAATATT--AAATATATTTTC
* *
75321259 AA-ATTATTTTTTAAATATTAAATATATTTTT
1 AATATTATTTTATAAATATTAAATATATTTTC
75321290 AATATTAT
1 AATATTAT
75321298 AAAACATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
31 13 0.36
32 5 0.14
33 14 0.39
34 2 0.06
35 2 0.06
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (32 bp):
AATATTATTTTATAAATATTAAATATATTTTC
Found at i:75321331 original size:9 final size:9
Alignment explanation
Indices: 75321267--75321354 Score: 70
Period size: 9 Copynumber: 9.4 Consensus size: 9
75321257 TCAAATTATT
75321267 TTTTAAATA
1 TTTTAAATA
*
75321276 -TTAAATATA
1 TTTTAA-ATA
*
75321285 TTTTTAATA
1 TTTTAAATA
* *
75321294 TTATAAAACA
1 TT-TTAAATA
*
75321304 TTTAAAATGA
1 TTTTAAAT-A
*
75321314 TTTAAAATA
1 TTTTAAATA
*
75321323 TTTTTAATA
1 TTTTAAATA
75321332 TTTTAAATGA
1 TTTTAAAT-A
75321342 TTTTAAATA
1 TTTTAAATA
75321351 TTTT
1 TTTT
75321355 TTAAATTTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
8 4 0.06
9 33 0.52
10 27 0.42
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (9 bp):
TTTTAAATA
Found at i:75321343 original size:28 final size:28
Alignment explanation
Indices: 75321303--75321364 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
75321293 ATTATAAAAC
*
75321303 ATTTAAAATGATTTAAAATA-TTTTTAA
1 ATTTTAAATGATTTAAAATATTTTTTAA
*
75321330 TATTTTAAATGATTTTAAATATTTTTTAA
1 -ATTTTAAATGATTTAAAATATTTTTTAA
75321359 ATTTTA
1 ATTTTA
75321365 CATAGAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 24 0.77
29 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (28 bp):
ATTTTAAATGATTTAAAATATTTTTTAA
Found at i:75321353 original size:19 final size:18
Alignment explanation
Indices: 75321267--75321354 Score: 70
Period size: 19 Copynumber: 4.7 Consensus size: 18
75321257 TCAAATTATT
*
75321267 TTTTAAATA-TTAAATATA
1 TTTTAAATATTTTAA-ATA
* * *
75321285 TTTTTAATATTATAAAACA
1 TTTTAAATATT-TTAAATA
* *
75321304 TTTAAAATGATTTAAAATA
1 TTTTAAAT-ATTTTAAATA
*
75321323 TTTTTAATATTTTAAATGA
1 TTTTAAATATTTTAAAT-A
75321342 TTTTAAATATTTT
1 TTTTAAATATTTT
75321355 TTAAATTTTA
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
18 16 0.28
19 34 0.60
20 7 0.12
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTTAAATATTTTAAATA
Found at i:75321964 original size:15 final size:16
Alignment explanation
Indices: 75321937--75321980 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
75321927 TGAAATGTAT
*
75321937 AATAA-AAATAAATAA
1 AATAAGAAAAAAATAA
*
75321952 AAT-AGATAAAAATAA
1 AATAAGAAAAAAATAA
75321967 AATAAGAAAAAAAT
1 AATAAGAAAAAAAT
75321981 TAGACTTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 1 0.04
15 14 0.58
16 9 0.38
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (16 bp):
AATAAGAAAAAAATAA
Found at i:75322158 original size:22 final size:21
Alignment explanation
Indices: 75322113--75322153 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
75322103 TTAAATTTTT
75322113 TTTAAAAATAATAATTAAAAA
1 TTTAAAAATAATAATTAAAAA
75322134 TTTAAAAA-AAT-ATTATAAAA
1 TTTAAAAATAATAATTA-AAAA
75322154 CATTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
21 8 0.42
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
TTTAAAAATAATAATTAAAAA
Found at i:75322160 original size:23 final size:22
Alignment explanation
Indices: 75322112--75322185 Score: 62
Period size: 23 Copynumber: 3.4 Consensus size: 22
75322102 GTTAAATTTT
*
75322112 TTTTAAAAATAATAAT-TAAAAA
1 TTTTAAAAA-AATATTATAAAAA
75322134 -TTTAAAAAAATATTATAAAACA
1 TTTTAAAAAAATATTATAAAA-A
* * * **
75322156 TTTTAAATATATATTACAAATT
1 TTTTAAAAAAATATTATAAAAA
75322178 TTTTAAAA
1 TTTTAAAA
75322186 TTAATAATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
20 5 0.12
21 13 0.31
22 8 0.19
23 16 0.38
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTTAAAAAAATATTATAAAAA
Found at i:75322213 original size:14 final size:14
Alignment explanation
Indices: 75322181--75322225 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
75322171 ACAAATTTTT
75322181 TAAAATT-AATAA-
1 TAAAATTAAATAAG
75322193 TATAAATTAAATAAG
1 TA-AAATTAAATAAG
75322208 TAAAA-TAAATTAAG
1 TAAAATTAAA-TAAG
75322222 TAAA
1 TAAA
75322226 TAATATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.07
13 9 0.31
14 16 0.55
15 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (14 bp):
TAAAATTAAATAAG
Found at i:75322215 original size:18 final size:18
Alignment explanation
Indices: 75322183--75322234 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
75322173 AAATTTTTTA
* *
75322183 AAATTAATAATATAAATT
1 AAATAAATAAAATAAATT
*
75322201 AAATAAGTAAAATAAATT
1 AAATAAATAAAATAAATT
* *
75322219 AAGTAAATAATATAAA
1 AAATAAATAAAATAAA
75322235 ACTTAAAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (18 bp):
AAATAAATAAAATAAATT
Found at i:75322288 original size:18 final size:17
Alignment explanation
Indices: 75322210--75322288 Score: 54
Period size: 18 Copynumber: 4.5 Consensus size: 17
75322200 TAAATAAGTA
*
75322210 AAAT-AAATTAAGTAAAT
1 AAATAAAATTAAG-AAAG
*
75322227 AATATAAAACTTAAAAAAG
1 AA-ATAAAA-TTAAGAAAG
75322246 AAA-AAAATTTAAGAAAG
1 AAATAAAA-TTAAGAAAG
* * *
75322263 AGACAAAATATAAGAAAT
1 AAATAAAAT-TAAGAAAG
75322281 AAATAAAA
1 AAATAAAA
75322289 AAGTTAAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
17 17 0.35
18 20 0.41
19 8 0.16
20 4 0.08
ACGTcount: A:0.70, C:0.03, G:0.08, T:0.20
Consensus pattern (17 bp):
AAATAAAATTAAGAAAG
Found at i:75322307 original size:19 final size:19
Alignment explanation
Indices: 75322285--75322327 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
75322275 AGAAATAAAT
*
75322285 AAAAAAGT-TAAAAAAGTA
1 AAAAAAGTAAAAAAAAGTA
75322303 AAAAAAGTAAAAAAAAGTA
1 AAAAAAGTAAAAAAAAGTA
75322322 AAAAAA
1 AAAAAA
75322328 ATAAGAACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (19 bp):
AAAAAAGTAAAAAAAAGTA
Found at i:75322328 original size:10 final size:9
Alignment explanation
Indices: 75322285--75322327 Score: 68
Period size: 9 Copynumber: 4.7 Consensus size: 9
75322275 AGAAATAAAT
*
75322285 AAAAAAGTT
1 AAAAAAGTA
75322294 AAAAAAGTA
1 AAAAAAGTA
75322303 AAAAAAGTAA
1 AAAAAAGT-A
75322313 AAAAAAGTA
1 AAAAAAGTA
75322322 AAAAAA
1 AAAAAA
75322328 ATAAGAACTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
9 23 0.72
10 9 0.28
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (9 bp):
AAAAAAGTA
Found at i:75323513 original size:64 final size:64
Alignment explanation
Indices: 75323434--75323563 Score: 251
Period size: 64 Copynumber: 2.0 Consensus size: 64
75323424 TACCCAACTT
*
75323434 CTGGAGTTCTAGGAACGGGTTGATTTTGAGTTAGCTCGTAAAAGAAGTTGATATTCAGGAAGCA
1 CTGGAGTTCTAGGAACGAGTTGATTTTGAGTTAGCTCGTAAAAGAAGTTGATATTCAGGAAGCA
75323498 CTGGAGTTCTAGGAACGAGTTGATTTTGAGTTAGCTCGTAAAAGAAGTTGATATTCAGGAAGCA
1 CTGGAGTTCTAGGAACGAGTTGATTTTGAGTTAGCTCGTAAAAGAAGTTGATATTCAGGAAGCA
75323562 CT
1 CT
75323564 TACTAACCCA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (64 bp):
CTGGAGTTCTAGGAACGAGTTGATTTTGAGTTAGCTCGTAAAAGAAGTTGATATTCAGGAAGCA
Found at i:75328535 original size:2 final size:2
Alignment explanation
Indices: 75328528--75328553 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
75328518 TTGTACGAGA
75328528 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
75328554 TCAGCTACTC
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75335408 original size:30 final size:31
Alignment explanation
Indices: 75335374--75335433 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
75335364 GCATCAATAT
*
75335374 TCTTATTTTCATTATCATA-CCTGTAATCAC
1 TCTTATTTGCATTATCATACCCTGTAATCAC
*
75335404 TCTTATTTGCATTTTCATACCCTGTAATCA
1 TCTTATTTGCATTATCATACCCTGTAATCA
75335434 TTTACATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 17 0.63
31 10 0.37
ACGTcount: A:0.25, C:0.23, G:0.05, T:0.47
Consensus pattern (31 bp):
TCTTATTTGCATTATCATACCCTGTAATCAC
Found at i:75340744 original size:30 final size:30
Alignment explanation
Indices: 75340689--75340848 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
75340679 ATGGTGAATC
75340689 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
75340718 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
75340748 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
75340777 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
75340805 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
75340835 CGCACACTTAGTGC
1 CGCACACTTAGTGC
75340849 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:75340781 original size:59 final size:57
Alignment explanation
Indices: 75340689--75340848 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
75340679 ATGGTGAATC
*
75340689 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
75340748 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
75340805 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
75340849 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:75348551 original size:30 final size:30
Alignment explanation
Indices: 75348496--75348655 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
75348486 ATAGTGAATC
75348496 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
75348525 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
75348555 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
75348584 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
75348612 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
75348642 CGCACACTTAGTGC
1 CGCACACTTAGTGC
75348656 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:75348588 original size:59 final size:57
Alignment explanation
Indices: 75348496--75348655 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
75348486 ATAGTGAATC
*
75348496 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
75348555 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
75348612 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
75348656 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:75354325 original size:30 final size:30
Alignment explanation
Indices: 75354270--75354429 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
75354260 ATAGTGAATC
75354270 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
75354299 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
75354329 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
75354358 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
75354386 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
75354416 CGCACACTTAGTGC
1 CGCACACTTAGTGC
75354430 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:75354362 original size:59 final size:57
Alignment explanation
Indices: 75354270--75354429 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
75354260 ATAGTGAATC
*
75354270 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
75354329 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
75354386 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
75354430 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:75357758 original size:46 final size:46
Alignment explanation
Indices: 75357691--75357860 Score: 202
Period size: 46 Copynumber: 3.7 Consensus size: 46
75357681 TGTAACCCGC
*
75357691 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
* *
75357737 CCATAAGTGAACTCAGACTCAACTCAACGAGCTC-GG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGC-A--T
* *** * *
75357783 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
75357830 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
75357861 TTTGGATGCC
Statistics
Matches: 102, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 61 0.60
47 29 0.28
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
Found at i:75357811 original size:93 final size:93
Alignment explanation
Indices: 75357699--75357870 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
75357689 GCCCATAAGT
* *
75357699 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
75357764 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
75357792 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
* *
75357857 CGAGTTTGGATGCC
66 CGAGCTCGGATGCC
75357871 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:75369668 original size:26 final size:26
Alignment explanation
Indices: 75369632--75369793 Score: 270
Period size: 26 Copynumber: 6.2 Consensus size: 26
75369622 TGATACAAAT
*
75369632 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
75369658 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
75369684 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
75369710 TGATAACGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
75369736 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
75369762 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
75369788 TGATAA
1 TGATAA
75369794 GAATTTCATG
Statistics
Matches: 132, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 132 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:75371305 original size:26 final size:26
Alignment explanation
Indices: 75371276--75371328 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
75371266 TTTACAGTTT
75371276 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
75371302 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
75371328 T
1 T
75371329 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:75374644 original size:131 final size:131
Alignment explanation
Indices: 75374403--75374862 Score: 431
Period size: 133 Copynumber: 3.5 Consensus size: 131
75374393 ATTAAGAATT
* ** * * * *
75374403 CTTTAAAACGAAGGCGACATTCGATATTTGGTATTTCGCGGAATCGTGCCTTAACGTGTTGGGTT
1 CTTTAAAACAAAGGCGATGTTCGATATTTGGCAATT--CGGAATCGTGCCCTAACGTGCTGGGTT
* * * ** * *
75374468 GCAATTTCTCATTTGCTCAAAGTAATCGAAGGTTCCTTTAGAATTTCACCCATATCTTTTAAAAA
64 GCAATTTCTCGTTTGCTTAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTCTTTTAAAAA
*
75374533 TTC
129 ATC
* *
75374536 C-TT-AAACGAAGGCGATGTGCGATATTTGGCAATTCACGGAATCGTGCCCTAACGTGCTGGGTT
1 CTTTAAAACAAAGGCGATGTTCGATATTTGGCAATT--CGGAATCGTGCCCTAACGTGCTGGGTT
* * * * * *
75374599 GCAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCAGTCATGTCTTCTAAAAA
64 GCAATTTCTCGTTTGCTTAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTCTT-TTAAAA
75374664 AATC
128 AATC
* ** * * * * * * *
75374668 CTTTAAAACAAAGGCAATACTCGGA-GTTCGACAATTTGGGAATCATGCCCTATCGTACTGGGTT
1 CTTTAAAACAAAGGCGATGTTC-GATATTTGGCAA-TTCGGAATCGTGCCCTAACGTGCTGGGTT
** * * ** *
75374732 GTGATTTCTCGTTTGTTTAAAACAATCGAATATTCCTTTAGGTTTTCACTCATGTTTTTTAAGAA
64 GCAATTTCTCGTTTGCTTAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTCTTTTAA-AA
*
75374797 AACC
128 AATC
* *
75374801 CTTTAAAACAAAGGCGATGTTCGATGTTTGGCAATTCGAGAATCGTGCCCTATCGTGCTGGG
1 CTTTAAAACAAAGGCGATGTTCGATATTTGGCAATTCG-GAATCGTGCCCTAACGTGCTGGG
75374863 CTGCGCTTTT
Statistics
Matches: 263, Mismatches: 56, Indels: 16
0.79 0.17 0.05
Matches are distributed among these distances:
131 98 0.37
132 19 0.07
133 124 0.47
134 18 0.07
135 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (131 bp):
CTTTAAAACAAAGGCGATGTTCGATATTTGGCAATTCGGAATCGTGCCCTAACGTGCTGGGTTGC
AATTTCTCGTTTGCTTAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTCTTTTAAAAAAT
C
Found at i:75374836 original size:133 final size:133
Alignment explanation
Indices: 75374403--75374917 Score: 390
Period size: 133 Copynumber: 3.9 Consensus size: 133
75374393 ATTAAGAATT
* ** * * * * * * *
75374403 CTTTAAAACGAAGGCGACATTCGATATTTGGTATTTCGCGGAATCGTGCCTTAACGTGTTGGGTT
1 CTTTAAAACAAAGGCGATGTTCGATGTTTGGCAATTAG-GGAATCGTGCCCTATCGTGCTGGGTT
* * * * ** ** * * * * * *
75374468 GCAATTTCTCATTTGCTCAAAGTAATCGAAGGTTCCTTTAGAATTTCACCCATATCTT-TTAAAA
65 GCGATTTCTCGTTTGTTTAAAACAATCGAATATCCCTTCAAAATTTCACTCATGTCTTCTAAAAA
**
75374532 ATTC
130 AACC
* * * * *
75374536 C-TT-AAACGAAGGCGATGTGCGATATTTGGCAATTCACGGAATCGTGCCCTAACGTGCTGGGTT
1 CTTTAAAACAAAGGCGATGTTCGATGTTTGGCAATT-AGGGAATCGTGCCCTATCGTGCTGGGTT
* * * * *
75374599 GCAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCAGTCATGTCTTCTAAAAA
65 GCGATTTCTCGTTTGTTTAAAACAATCGAATATCCCTTCAAAATTTCACTCATGTCTTCTAAAAA
*
75374664 AATC
130 AACC
* ** * * * * *
75374668 CTTTAAAACAAAGGCAATACTCGGA-GTTCGACAATTTGGGAATCATGCCCTATCGTACTGGGTT
1 CTTTAAAACAAAGGCGATGTTC-GATGTTTGGCAATTAGGGAATCGTGCCCTATCGTGCTGGGTT
* * * *** * * *
75374732 GTGATTTCTCGTTTGTTTAAAACAATCGAATATTCCTTTAGGTTTTCACTCATGTTTTTTAAGAA
65 GCGATTTCTCGTTTGTTTAAAACAATCGAATATCCCTTCAAAATTTCACTCATGTCTTCTAAAAA
75374797 AACC
130 AACC
* * *
75374801 CTTTAAAACAAAGGCGATGTTCGATGTTTGGCAATTCGAGAATCGTGCCCTATCGTGCTGGGCTG
1 CTTTAAAACAAAGGCGATGTTCGATGTTTGGCAATTAGGGAATCGTGCCCTATCGTGCTGGGTTG
* * * * * * **
75374866 CGCTTTTTCATTTGTTCAAAACGATCGAAGATCCCTTCGGAATTTCACTCAT
66 CGATTTCTCGTTTGTTTAAAACAATCGAATATCCCTTCAAAATTTCACTCAT
75374918 ATTTTATAAG
Statistics
Matches: 303, Mismatches: 73, Indels: 12
0.78 0.19 0.03
Matches are distributed among these distances:
131 96 0.32
132 13 0.04
133 172 0.57
134 20 0.07
135 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (133 bp):
CTTTAAAACAAAGGCGATGTTCGATGTTTGGCAATTAGGGAATCGTGCCCTATCGTGCTGGGTTG
CGATTTCTCGTTTGTTTAAAACAATCGAATATCCCTTCAAAATTTCACTCATGTCTTCTAAAAAA
ACC
Found at i:75376014 original size:2 final size:2
Alignment explanation
Indices: 75376009--75376047 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
75375999 TATATATATA
75376009 TG TG TG TG TG TG 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 TG TG TG TG TG TG T
75376048 ATCTTAGCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:75377698 original size:30 final size:30
Alignment explanation
Indices: 75377653--75377711 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
75377643 CTTAACAAGT
*
75377653 AAATACCTCTAAAATAATAATAAAATTAAC
1 AAATACCTCTAAAATAATAACAAAATTAAC
* * *
75377683 AAATTCCTTTAAAATAATAACAGAATTAA
1 AAATACCTCTAAAATAATAACAAAATTAA
75377712 TAATAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.29
Consensus pattern (30 bp):
AAATACCTCTAAAATAATAACAAAATTAAC
Found at i:75378080 original size:46 final size:46
Alignment explanation
Indices: 75378026--75378119 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
75378016 AGCCCGACCT
75378026 ATGAGCAGGTCTAAATACAACACAATACAATGCGTAGCATAAATCA
1 ATGAGCAGGTCTAAATACAACACAATACAATGCGTAGCATAAATCA
75378072 ATGAGCAGGTCTAAATACAACACAATACAATGCGTAGCATAAATCA
1 ATGAGCAGGTCTAAATACAACACAATACAATGCGTAGCATAAATCA
75378118 AT
1 AT
75378120 AACATTTGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.20
Consensus pattern (46 bp):
ATGAGCAGGTCTAAATACAACACAATACAATGCGTAGCATAAATCA
Found at i:75381398 original size:90 final size:90
Alignment explanation
Indices: 75381245--75381419 Score: 219
Period size: 90 Copynumber: 1.9 Consensus size: 90
75381235 CGGGTTAACA
* * * *
75381245 AGATCCCGTATAAGACCATATCTGGGATATGGCATCGGTATCGATATGTGTTATCCTGTAAGACC
1 AGATCCCATATAAGACCATATCTGGGACATGGCATCGGCATCGATATGTGTGATCCTGTAAGACC
* *
75381310 ATATCTGGGGTATGGCGTTGATATG
66 ATATCTGGGATATGACGTTGATATG
* * * *
75381335 AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA-GTG-GTGATCTCATGTAAGA
1 AGATCCCATATAAGACCATATCTGGGACATGGCATCGGCATCGATATGTGTGATC-C-TGTAAGA
*
75381398 CCATATTTGGGATATGACGTTG
64 CCATATCTGGGATATGACGTTG
75381420 GCATCTTATT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
88 5 0.07
89 3 0.04
90 64 0.89
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (90 bp):
AGATCCCATATAAGACCATATCTGGGACATGGCATCGGCATCGATATGTGTGATCCTGTAAGACC
ATATCTGGGATATGACGTTGATATG
Found at i:75386883 original size:2 final size:2
Alignment explanation
Indices: 75386876--75386909 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
75386866 TATTGTCTAC
75386876 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
75386910 TTGCAACAAT
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:75390461 original size:42 final size:42
Alignment explanation
Indices: 75390402--75390486 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
75390392 AATTGGGAAG
75390402 ATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAGAAA
1 ATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAGAAA
* *
75390444 ATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAATAAA
1 ATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAGAAA
75390486 A
1 A
75390487 ATATTCCTAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (42 bp):
ATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAGAAA
Found at i:75390507 original size:43 final size:42
Alignment explanation
Indices: 75390402--75390508 Score: 101
Period size: 42 Copynumber: 2.5 Consensus size: 42
75390392 AATTGGGAAG
* * * *
75390402 ATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAGAAA
1 ATAGTTCCCTGAATATAATAAACTACTAAAACATAAAAAAAA
* * * *
75390444 ATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAATAAAA
1 ATAGTTCCCTGAATATAATAAACTACTAAAACATAAAA-AAAA
75390487 ATA-TT-CCTAGAATATGAATAAA
1 ATAGTTCCCT-GAATAT-AATAAA
75390509 ACTTATCTAC
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
41 3 0.05
42 42 0.74
43 12 0.21
ACGTcount: A:0.50, C:0.14, G:0.06, T:0.30
Consensus pattern (42 bp):
ATAGTTCCCTGAATATAATAAACTACTAAAACATAAAAAAAA
Found at i:75390533 original size:19 final size:18
Alignment explanation
Indices: 75390511--75390550 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
75390501 TGAATAAAAC
75390511 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
75390530 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
75390548 TTA
1 TTA
75390551 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:75395145 original size:42 final size:42
Alignment explanation
Indices: 75395086--75395170 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
75395076 AATTGGGAAG
* *
75395086 ATAGTTCTCTTATTCTAATAAACTACTAAAACATAAAAGAAA
1 ATAGTTCCCTTACTCTAATAAACTACTAAAACATAAAAGAAA
* *
75395128 ATAGTTCCCTTACTCTAATAAACTACTAAAAGATAAAATAAA
1 ATAGTTCCCTTACTCTAATAAACTACTAAAACATAAAAGAAA
75395170 A
1 A
75395171 ATATTCCTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (42 bp):
ATAGTTCCCTTACTCTAATAAACTACTAAAACATAAAAGAAA
Found at i:75395191 original size:43 final size:42
Alignment explanation
Indices: 75395101--75395192 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 42
75395091 TCTCTTATTC
* * * *
75395101 TAATAAACTACTAAAACATAAAAGAAAATAGTTCCCTTACTC
1 TAATAAACTACTAAAACATAAAAAAAAATAGTTCCCTGAATA
*
75395143 TAATAAACTACTAAAAGATAAAATAAAAATA-TT-CCTAGAATA
1 TAATAAACTACTAAAACATAAAA-AAAAATAGTTCCCT-GAATA
75395185 TGAATAAA
1 T-AATAAA
75395193 ACTTATCTAC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
41 3 0.07
42 27 0.64
43 12 0.29
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.26
Consensus pattern (42 bp):
TAATAAACTACTAAAACATAAAAAAAAATAGTTCCCTGAATA
Found at i:75395217 original size:19 final size:18
Alignment explanation
Indices: 75395195--75395234 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
75395185 TGAATAAAAC
75395195 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
75395214 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
75395232 TTA
1 TTA
75395235 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:75396412 original size:17 final size:17
Alignment explanation
Indices: 75396390--75396422 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
75396380 AATATAAGAG
75396390 ATTGCTTGCAAGTTAAT
1 ATTGCTTGCAAGTTAAT
75396407 ATTGCTTGCAAGTTAA
1 ATTGCTTGCAAGTTAA
75396423 GTTAAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.39
Consensus pattern (17 bp):
ATTGCTTGCAAGTTAAT
Found at i:75397376 original size:21 final size:20
Alignment explanation
Indices: 75397346--75397393 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
75397336 TTAAGAATTA
* *
75397346 TTTTAGTATTATTTTTATTT
1 TTTTAATATTATTTTTATGT
*
75397366 GTTTTAATATTTGTTTTTATGT
1 -TTTTAATA-TTATTTTTATGT
75397388 TTTTAA
1 TTTTAA
75397394 ATATATTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (20 bp):
TTTTAATATTATTTTTATGT
Found at i:75397416 original size:26 final size:24
Alignment explanation
Indices: 75397372--75397420 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
75397362 ATTTGTTTTA
*
75397372 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
75397396 ATATTTGATTTATTATATTTTTAAA
1 ATATTTG-TTT-TTATATTTTTAAA
75397421 CTTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:75399416 original size:35 final size:35
Alignment explanation
Indices: 75399370--75399477 Score: 216
Period size: 35 Copynumber: 3.1 Consensus size: 35
75399360 CTGTTACGAC
75399370 AATGGCTAAAAGATGTTTAGGATGGTGATGCGTCA
1 AATGGCTAAAAGATGTTTAGGATGGTGATGCGTCA
75399405 AATGGCTAAAAGATGTTTAGGATGGTGATGCGTCA
1 AATGGCTAAAAGATGTTTAGGATGGTGATGCGTCA
75399440 AATGGCTAAAAGATGTTTAGGATGGTGATGCGTCA
1 AATGGCTAAAAGATGTTTAGGATGGTGATGCGTCA
75399475 AAT
1 AAT
75399478 TGTGTCTAGC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 73 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (35 bp):
AATGGCTAAAAGATGTTTAGGATGGTGATGCGTCA
Found at i:75411711 original size:18 final size:18
Alignment explanation
Indices: 75411684--75411730 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
75411674 GCCTATGCTT
75411684 GGTCCTTTTCTTAAATAA
1 GGTCCTTTTCTTAAATAA
* *
75411702 GGTCCATTTCTTGAATAA
1 GGTCCTTTTCTTAAATAA
75411720 GGTCCTTTTCT
1 GGTCCTTTTCT
75411731 AGTACCCTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.45
Consensus pattern (18 bp):
GGTCCTTTTCTTAAATAA
Found at i:75412626 original size:66 final size:66
Alignment explanation
Indices: 75412513--75412695 Score: 251
Period size: 66 Copynumber: 2.8 Consensus size: 66
75412503 AACATAGCCA
* **
75412513 AGCTATGGTCTTACACACATAACCCCATGTTTAATGTCCTGGCGGACTCCACACATTGCCATAGT
1 AGCTAAGGTCTTACACATGT-ACCCCATGTTTAATGTCCTGGCGGACTCCACACATTGCCATAGT
75412578 CG
65 CG
* * *
75412580 AGCTAAGGTCTTACACATGTACCCCATGTTTAATGTCCTGGTGGACTCCACTCGTTGCCATAGTC
1 AGCTAAGGTCTTACACATGTACCCCATGTTTAATGTCCTGGCGGACTCCACACATTGCCATAGTC
75412645 G
66 G
* * * *
75412646 AGCTAAAGG-CTTACACATGTACCCAATCTTTAATGTCCTAGCGAACTCCA
1 AGCT-AAGGTCTTACACATGTACCCCATGTTTAATGTCCTGGCGGACTCCA
75412696 TATGTTGCCA
Statistics
Matches: 104, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
66 83 0.80
67 21 0.20
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (66 bp):
AGCTAAGGTCTTACACATGTACCCCATGTTTAATGTCCTGGCGGACTCCACACATTGCCATAGTC
G
Found at i:75418301 original size:14 final size:14
Alignment explanation
Indices: 75418284--75418327 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
75418274 AAATTATCTT
75418284 AATTAACTAAATTA
1 AATTAACTAAATTA
* *
75418298 AATTAATTAAGTTA
1 AATTAACTAAATTA
*
75418312 AGTTAAACTAAATTA
1 AATT-AACTAAATTA
75418327 A
1 A
75418328 TAAAGTTAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 15 0.62
15 9 0.38
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (14 bp):
AATTAACTAAATTA
Found at i:75418323 original size:24 final size:24
Alignment explanation
Indices: 75418291--75418336 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
75418281 CTTAATTAAC
* *
75418291 TAAATTAAATTAATTAAGTTAAGT
1 TAAACTAAATTAATAAAGTTAAGT
75418315 TAAACTAAATTAATAAAGTTAA
1 TAAACTAAATTAATAAAGTTAA
75418337 TCTAAAGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (24 bp):
TAAACTAAATTAATAAAGTTAAGT
Found at i:75418333 original size:19 final size:20
Alignment explanation
Indices: 75418284--75418342 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 20
75418274 AAATTATCTT
*
75418284 AATTAACTAAA-TTAAA-TT
1 AATTAACTAAAGTTAAACTA
* *
75418302 AATTAAGTTAAGTTAAACTA
1 AATTAACTAAAGTTAAACTA
*
75418322 AATTAA-TAAAGTTAATCTA
1 AATTAACTAAAGTTAAACTA
75418341 AA
1 AA
75418343 GTATAAATAG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
18 9 0.26
19 18 0.53
20 7 0.21
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (20 bp):
AATTAACTAAAGTTAAACTA
Found at i:75418342 original size:24 final size:24
Alignment explanation
Indices: 75418286--75418342 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
75418276 ATTATCTTAA
* *
75418286 TTAA-CTAAATTAAATTAATTAAG
1 TTAATCTAAACTAAATTAATAAAG
75418309 TTAAGT-TAAACTAAATTAATAAAG
1 TTAA-TCTAAACTAAATTAATAAAG
75418333 TTAATCTAAA
1 TTAATCTAAA
75418343 GTATAAATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 5 0.17
24 24 0.83
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (24 bp):
TTAATCTAAACTAAATTAATAAAG
Found at i:75418590 original size:25 final size:25
Alignment explanation
Indices: 75418562--75418611 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
75418552 TAAATCTTTA
75418562 GAAAGTTACCATTGTTGATTTCTTG
1 GAAAGTTACCATTGTTGATTTCTTG
75418587 GAAAGTTACCATTGTTGATTTCTTG
1 GAAAGTTACCATTGTTGATTTCTTG
75418612 AAGAATTAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (25 bp):
GAAAGTTACCATTGTTGATTTCTTG
Found at i:75419290 original size:2 final size:2
Alignment explanation
Indices: 75419277--75419313 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
75419267 ATTGATAATG
*
75419277 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
75419314 GAAATGATGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:75424173 original size:13 final size:13
Alignment explanation
Indices: 75424140--75424179 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
75424130 ACAAAATTTC
75424140 TTATGGCGTAC-AT
1 TTATGGC-TACTAT
75424153 TGTATGGCTACTAT
1 T-TATGGCTACTAT
75424167 TTATGGCTACTAT
1 TTATGGCTACTAT
75424180 AGAAGTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (13 bp):
TTATGGCTACTAT
Found at i:75425087 original size:29 final size:28
Alignment explanation
Indices: 75425028--75425219 Score: 147
Period size: 29 Copynumber: 6.7 Consensus size: 28
75425018 TAGAGTTTGT
*
75425028 CACAAA-GCATTCC-TTTAACAGAGATGGC
1 CACAAAGGCA-TCCTTTTAA-AGAGATAGC
* *
75425056 CACAAAGGCATCCTTTTGAAATAGATAAC
1 CACAAAGGCATCCTTTT-AAAGAGATAGC
* *
75425085 CACAAAAGGCATCCTTTTGATAGAGATAAC
1 CAC-AAAGGCATCCTTTT-AAAGAGATAGC
** *
75425115 CAC-AAGATATCCTTTTAACAAAGATAGC
1 CACAAAGGCATCCTTTTAA-AGAGATAGC
* * *
75425143 CACATAGGCTTCCTTTTCATAGAGATAGC
1 CACAAAGGCATCCTTTT-AAAGAGATAGC
* * * *
75425172 CACAAAGACATTCATTTAATTGAGATAGC
1 CACAAAGGCATCCTTTTAA-AGAGATAGC
*
75425201 CACAAAAGCATCCTTTTAA
1 CACAAAGGCATCCTTTTAA
75425220 CAAAGGTCAC
Statistics
Matches: 129, Mismatches: 27, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
27 1 0.01
28 31 0.24
29 67 0.52
30 30 0.23
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.26
Consensus pattern (28 bp):
CACAAAGGCATCCTTTTAAAGAGATAGC
Found at i:75425119 original size:87 final size:87
Alignment explanation
Indices: 75425028--75425224 Score: 213
Period size: 87 Copynumber: 2.3 Consensus size: 87
75425018 TAGAGTTTGT
* * * *
75425028 CACAAAGCATTCC-TTTAACAGAGATGGCCACAAAGGCATCCTTTTGAAATAGATAACCACAAAA
1 CACAAAGCATTCCTTTTAACAAAGATAGCCACAAAGGCATCCTTTTCAAAGAGATAACCAC-AAA
* * *
75425092 GGCATCCTTTTGATAGAGATAAC
65 GACATCCATTTAATAGAGATAAC
* * * *
75425115 CAC-AAG-ATATCCTTTTAACAAAGATAGCCACATAGGCTTCCTTTTCATAGAGATAGCCACAAA
1 CACAAAGCAT-TCCTTTTAACAAAGATAGCCACAAAGGCATCCTTTTCAAAGAGATAACCACAAA
* * *
75425178 GACATTCATTTAATTGAGATAGC
65 GACATCCATTTAATAGAGATAAC
75425201 CACAAAAGCA-TCCTTTTAACAAAG
1 CAC-AAAGCATTCCTTTTAACAAAG
75425225 GTCACCTCAA
Statistics
Matches: 91, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
85 2 0.02
86 29 0.32
87 56 0.62
88 3 0.03
89 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (87 bp):
CACAAAGCATTCCTTTTAACAAAGATAGCCACAAAGGCATCCTTTTCAAAGAGATAACCACAAAG
ACATCCATTTAATAGAGATAAC
Found at i:75425126 original size:28 final size:28
Alignment explanation
Indices: 75425065--75425176 Score: 82
Period size: 28 Copynumber: 3.9 Consensus size: 28
75425055 CCACAAAGGC
* * **
75425065 ATCCTTTTGAAATAGATAACCACAAAAGGC
1 ATCCTTTTGATAGAGATAACCAC--AAGAT
75425095 ATCCTTTTGATAGAGATAACCACAAGAT
1 ATCCTTTTGATAGAGATAACCACAAGAT
* * * * *
75425123 ATCCTTTTAACAAAGATAGCCACATAGGCT
1 ATCCTTTTGATAGAGATAACCACA-A-GAT
* *
75425153 -TCCTTTTCATAGAGATAGCCACAA
1 ATCCTTTTGATAGAGATAACCACAA
75425177 AGACATTCAT
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
28 24 0.35
29 21 0.31
30 23 0.34
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.27
Consensus pattern (28 bp):
ATCCTTTTGATAGAGATAACCACAAGAT
Found at i:75425128 original size:58 final size:58
Alignment explanation
Indices: 75425055--75425217 Score: 179
Period size: 58 Copynumber: 2.8 Consensus size: 58
75425045 ACAGAGATGG
* * *
75425055 CCACAAAGGCATCCTTTTGAAATAGATAACCACAAAAGGCATCCTTTTGATAGAGATAA
1 CCACAAAGACATCCTTTT-AAATAGATAGCCACAAAAGGCATCCTTTTCATAGAGATAA
* * * * *
75425114 CCAC-AAGATATCCTTTTAACAAAGATAGCCAC-ATAGGCTTCCTTTTCATAGAGATAG
1 CCACAAAGACATCCTTTTAA-ATAGATAGCCACAAAAGGCATCCTTTTCATAGAGATAA
* * *
75425171 CCACAAAGACATTCATTTAATTGAGATAGCCACAAAA-GCATCCTTTT
1 CCACAAAGACATCCTTTTAAAT-AGATAGCCACAAAAGGCATCCTTTT
75425218 AACAAAGGTC
Statistics
Matches: 85, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
57 27 0.32
58 52 0.61
59 6 0.07
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.26
Consensus pattern (58 bp):
CCACAAAGACATCCTTTTAAATAGATAGCCACAAAAGGCATCCTTTTCATAGAGATAA
Found at i:75428586 original size:14 final size:16
Alignment explanation
Indices: 75428555--75428586 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
75428545 CTTATTAGCA
75428555 ATTTATCTCTTGGTGG
1 ATTTATCTCTTGGTGG
75428571 ATTTATC-CTT-GTGG
1 ATTTATCTCTTGGTGG
75428585 AT
1 AT
75428587 GCTTTCTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 3 0.19
16 7 0.44
ACGTcount: A:0.16, C:0.12, G:0.22, T:0.50
Consensus pattern (16 bp):
ATTTATCTCTTGGTGG
Found at i:75429230 original size:26 final size:26
Alignment explanation
Indices: 75429132--75429232 Score: 130
Period size: 26 Copynumber: 3.8 Consensus size: 26
75429122 CTCACAATAG
**
75429132 TAGTCCTGGCAAACTTTCCACATAAGA
1 TAGTCCTGGCGGAC-TTCCACATAAGA
* * *
75429159 TAGTCTTGGTGGACTTTCACATAAGA
1 TAGTCCTGGCGGACTTCCACATAAGA
75429185 TAGTCCTGGCGGACTTCCACATAAGA
1 TAGTCCTGGCGGACTTCCACATAAGA
* *
75429211 GAGTCCTGGCGGACTACCACAT
1 TAGTCCTGGCGGACTTCCACAT
75429233 TTAAGATCCT
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
26 54 0.84
27 10 0.16
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (26 bp):
TAGTCCTGGCGGACTTCCACATAAGA
Found at i:75430389 original size:33 final size:34
Alignment explanation
Indices: 75430352--75430426 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
75430342 AGTGACAGTC
75430352 CAGTATCAGTGT-GGCCTTAGCCCATTACAGTAA
1 CAGTATCAGTGTGGGCCTTAGCCCATTACAGTAA
*
75430385 CAGTATCAGTGTGGGCCTTAGCTCATTACAGTAA
1 CAGTATCAGTGTGGGCCTTAGCCCATTACAGTAA
75430419 CAGTATCA
1 CAGTATCA
75430427 TAAATGCAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
33 12 0.30
34 28 0.70
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (34 bp):
CAGTATCAGTGTGGGCCTTAGCCCATTACAGTAA
Found at i:75430884 original size:17 final size:19
Alignment explanation
Indices: 75430848--75430884 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
75430838 AAAGCCCATA
75430848 ACACGGCCCATGTGGGCCC
1 ACACGGCCCATGTGGGCCC
75430867 ACAC-GCCCATGT-GGCCC
1 ACACGGCCCATGTGGGCCC
75430884 A
1 A
75430885 ATAAGCCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 8 0.44
19 4 0.22
ACGTcount: A:0.19, C:0.43, G:0.27, T:0.11
Consensus pattern (19 bp):
ACACGGCCCATGTGGGCCC
Found at i:75433096 original size:16 final size:16
Alignment explanation
Indices: 75433071--75433101 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
75433061 GCAAGCAAGG
*
75433071 GAAAAGAAAAAGAATA
1 GAAAAAAAAAAGAATA
75433087 GAAAAAAAAAAGAAT
1 GAAAAAAAAAAGAAT
75433102 CATCCCCGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.06
Consensus pattern (16 bp):
GAAAAAAAAAAGAATA
Found at i:75435915 original size:16 final size:16
Alignment explanation
Indices: 75435894--75435925 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
75435884 CCGACAAATT
*
75435894 CTGAAATGTCGAAAAG
1 CTGAAATGCCGAAAAG
75435910 CTGAAATGCCGAAAAG
1 CTGAAATGCCGAAAAG
75435926 TCAGAAGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.16, G:0.25, T:0.16
Consensus pattern (16 bp):
CTGAAATGCCGAAAAG
Found at i:75436168 original size:28 final size:28
Alignment explanation
Indices: 75436135--75436208 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
75436125 GTTGCATGAC
*
75436135 TATGAATGTAATTGGGCCTGACGGGCCA
1 TATGAATGTAATTGGGCCCGACGGGCCA
* * *
75436163 TATGAAAGTGATTGGGCCCGATGGGCCA
1 TATGAATGTAATTGGGCCCGACGGGCCA
75436191 TATGAATG-AGATTGGGCC
1 TATGAATGTA-ATTGGGCC
75436209 AAAAGGGGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (28 bp):
TATGAATGTAATTGGGCCCGACGGGCCA
Found at i:75438369 original size:28 final size:27
Alignment explanation
Indices: 75438306--75438375 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
75438296 ATAGTGAGTC
75438306 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
75438333 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
75438361 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
75438376 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:75450322 original size:46 final size:46
Alignment explanation
Indices: 75450091--75450318 Score: 429
Period size: 46 Copynumber: 5.0 Consensus size: 46
75450081 AGTTAAATAT
75450091 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
75450137 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
75450183 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
75450229 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
75450275 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
75450319 AGATGTATAT
Statistics
Matches: 179, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 179 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.32
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:75450376 original size:47 final size:47
Alignment explanation
Indices: 75450322--75450432 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 47
75450312 ATGTATGAGA
* * *
75450322 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
75450369 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
75450416 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
75450433 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:75453035 original size:40 final size:40
Alignment explanation
Indices: 75452980--75453243 Score: 429
Period size: 40 Copynumber: 6.6 Consensus size: 40
75452970 CTCGACGATG
*
75452980 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
*
75453020 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
75453060 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* **
75453100 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGACGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
75453140 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
75453180 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
75453220 ATCCGGGCTAGGTCCCGAAGAGCA
1 ATCCGGGCTAAGTTCCGAAGAGCA
75453244 ATCATGCTGG
Statistics
Matches: 214, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 214 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
Found at i:75453971 original size:40 final size:40
Alignment explanation
Indices: 75453907--75454007 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 40
75453897 AATGGTATCT
* ** * *
75453907 GGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTACTA-AATCC
1 GGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA-CC
*
75453947 GGGCTAATTCCCGAAGGCAATTGTGTGAATCACTATAACC
1 GGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACC
*
75453987 GGGCT-ATGTCCCGAAGACAAT
1 GGGCTAAT-TCCCGAAGGCAAT
75454008 CGAGTGAGTC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 2 0.04
40 48 0.92
41 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
GGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACC
Found at i:75454023 original size:40 final size:40
Alignment explanation
Indices: 75453945--75454041 Score: 99
Period size: 40 Copynumber: 2.5 Consensus size: 40
75453935 GTTACTAAAT
* * *
75453945 CCGGGCTAATTCCCGAAGGCAATTGTGTGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGTGAATCACTATAA
* * *
75453985 CCGGGCT-ATGTCCCGAAGACAATCGAGTGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGTGAATCACTATAA
* *
75454025 CC-GGTTAAATCCCGAAG
1 CCGGGCTAATTCCCGAAG
75454042 GTACGTGATT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
39 13 0.28
40 34 0.72
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGTGAATCACTATAA
Found at i:75456939 original size:46 final size:46
Alignment explanation
Indices: 75456708--75456935 Score: 429
Period size: 46 Copynumber: 5.0 Consensus size: 46
75456698 AGTTAAATAT
75456708 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
75456754 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
75456800 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
75456846 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
75456892 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
75456936 AGATGTATAT
Statistics
Matches: 179, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 179 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.32
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:75456993 original size:47 final size:47
Alignment explanation
Indices: 75456939--75457049 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 47
75456929 ATGTATGAGA
* * *
75456939 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
75456986 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
75457033 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
75457050 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:75460465 original size:28 final size:27
Alignment explanation
Indices: 75460402--75460471 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
75460392 ATAGTGAGTC
75460402 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
75460429 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
75460457 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
75460472 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:75462518 original size:17 final size:18
Alignment explanation
Indices: 75462485--75462518 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
75462475 TTCAAAGAAG
75462485 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
75462503 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
75462519 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:75467871 original size:21 final size:21
Alignment explanation
Indices: 75467845--75467887 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
75467835 ATTGCATGAC
* *
75467845 TATGAATGTGATTGGGCCTGA
1 TATGAAAGTGATTAGGCCTGA
75467866 TATGAAAGTGATTAGGCCTGA
1 TATGAAAGTGATTAGGCCTGA
75467887 T
1 T
75467888 GGGCCATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.09, G:0.30, T:0.33
Consensus pattern (21 bp):
TATGAAAGTGATTAGGCCTGA
Found at i:75467934 original size:28 final size:28
Alignment explanation
Indices: 75467865--75467940 Score: 100
Period size: 28 Copynumber: 2.7 Consensus size: 28
75467855 ATTGGGCCTG
* * * *
75467865 ATATGAAAGTGATTAGGCCTGATGGGCC
1 ATATGAATGAGATTGGGCCTGATAGGCC
75467893 ATATGAAT-ATGATTGGGCCTGATAGGCC
1 ATATGAATGA-GATTGGGCCTGATAGGCC
75467921 ATATGAATGAGATTGGGCCT
1 ATATGAATGAGATTGGGCCT
75467941 AAAGGGGCCA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 41 0.98
29 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.28
Consensus pattern (28 bp):
ATATGAATGAGATTGGGCCTGATAGGCC
Found at i:75467956 original size:29 final size:29
Alignment explanation
Indices: 75467865--75467958 Score: 90
Period size: 28 Copynumber: 3.3 Consensus size: 29
75467855 ATTGGGCCTG
* *
75467865 ATATGAA-AGTGATTAGGCCTG-ATGGGCC
1 ATATGAATA-TGATTGGGCCTGAAAGGGCC
*
75467893 ATATGAATATGATTGGGCCTGATA-GGCC
1 ATATGAATATGATTGGGCCTGAAAGGGCC
75467921 ATATGAATGA-GATTGGGCCT-AAAGGGGCC
1 ATATGAAT-ATGATTGGGCCTGAAA-GGGCC
*
75467950 AAATGAATA
1 ATATGAATA
75467959 AGTATGGATC
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
27 2 0.04
28 41 0.73
29 13 0.23
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.24
Consensus pattern (29 bp):
ATATGAATATGATTGGGCCTGAAAGGGCC
Found at i:75469226 original size:17 final size:18
Alignment explanation
Indices: 75469191--75469226 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
75469181 ATTTCAAAGA
75469191 AAGGTTTTCAATGAAAAC
1 AAGGTTTTCAATGAAAAC
*
75469209 AAGGTTTTCGAT-AAAAC
1 AAGGTTTTCAATGAAAAC
75469226 A
1 A
75469227 CTTCAATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (18 bp):
AAGGTTTTCAATGAAAAC
Found at i:75472595 original size:27 final size:27
Alignment explanation
Indices: 75472554--75472607 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
75472544 TGTCATGTGA
* *
75472554 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
75472581 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
75472608 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:75472929 original size:49 final size:50
Alignment explanation
Indices: 75472847--75473086 Score: 261
Period size: 49 Copynumber: 4.8 Consensus size: 50
75472837 ATCTATTGTG
75472847 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTGGATAATT
* * * **
75472897 -GGTCGCATATGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTGGATAA-TT
* * * * * * **
75472947 CGATCACGTGTGTAGTACTAAGTGCAGGTTACTACGTGTA-TCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACT-GGATAATT
* * * *
75472997 AGGTCACATGTGTAGTATTAAGTGCAGGCTACTACGTGTATTGCATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTGGATAATT
* * *
75473047 -GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTAC
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAC
75473087 CAAATAACCT
Statistics
Matches: 155, Mismatches: 31, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
49 76 0.49
50 43 0.28
51 36 0.23
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTGGATAATT
Found at i:75476216 original size:51 final size:51
Alignment explanation
Indices: 75476076--75476217 Score: 207
Period size: 51 Copynumber: 2.8 Consensus size: 51
75476066 CAGATGCCCG
* *
75476076 GTGGCCTGCACAAAGTACCACACTTGT-AGTCAAAGCTACCTTCTTCACAAA
1 GTGGCCTGCACATAGTACCACACTTGTGA-TCAAAGCTATCTTCTTCACAAA
*
75476127 GTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTATCTT-TTACACAAA
1 GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTATCTTCTT-CACAAA
* *
75476178 GTGGCCTGCACTTAGTACCACACATGTGATCAAAGCTATC
1 GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTATC
75476218 AGGTACGTAT
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
50 2 0.02
51 80 0.96
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (51 bp):
GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTATCTTCTTCACAAA
Found at i:75478726 original size:29 final size:29
Alignment explanation
Indices: 75478694--75478751 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
75478684 TAAAGTGATT
* *
75478694 TTGAGTAAAAATGTATATT-AGGGATTAAA
1 TTGAG-AAAAATATATATTGAGGAATTAAA
*
75478723 TTGAGAAAAGTATATATTGAGGAATTAAA
1 TTGAGAAAAATATATATTGAGGAATTAAA
75478752 ATGTGAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.33
Consensus pattern (29 bp):
TTGAGAAAAATATATATTGAGGAATTAAA
Found at i:75486619 original size:29 final size:28
Alignment explanation
Indices: 75486557--75486693 Score: 104
Period size: 29 Copynumber: 4.8 Consensus size: 28
75486547 ATACATACAC
* *
75486557 ATGGCCCA-CTAGGCCTAATCTCA-TTTAT
1 ATGGCCCATC-AGGCCCAAT-TCACTTCAT
75486585 ATGGCCCATCCA-GCCCAATTCACGTTCAT
1 ATGGCCCAT-CAGGCCCAATTCAC-TTCAT
* *
75486614 ATGGCCCATCAGGCCTAATTTACATTCAT
1 ATGGCCCATCAGGCCCAATTCAC-TTCAT
* * *
75486643 ATGGCCCGTTAGGCCCAATCTCA-TTTAT
1 ATGGCCCATCAGGCCCAAT-TCACTTCAT
*
75486671 ATGGCCCATCCA-GCCCAAATCAC
1 ATGGCCCAT-CAGGCCCAATTCAC
75486694 ATTATATCCA
Statistics
Matches: 88, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
27 6 0.07
28 34 0.39
29 45 0.51
30 3 0.03
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (28 bp):
ATGGCCCATCAGGCCCAATTCACTTCAT
Found at i:75486673 original size:57 final size:57
Alignment explanation
Indices: 75486557--75486680 Score: 139
Period size: 57 Copynumber: 2.2 Consensus size: 57
75486547 ATACATACAC
*
75486557 ATGGCCCA-CTAGGCCTAATCTCATTTATATGGCCCATCCAGCCCAATTCACGTTCAT
1 ATGGCCCATCTAGGCCTAATCTCATTCATATGGCCCATCCAGCCCAATTCAC-TTCAT
* * * *
75486614 ATGGCCCATC-AGGCCTAATTTACATTCATATGGCCCGT-TAGGCCCAATCTCA-TTTAT
1 ATGGCCCATCTAGGCCTAATCT-CATTCATATGGCCCATCCA-GCCCAAT-TCACTTCAT
75486671 ATGGCCCATC
1 ATGGCCCATC
75486681 CAGCCCAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
57 33 0.57
58 22 0.38
59 3 0.05
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (57 bp):
ATGGCCCATCTAGGCCTAATCTCATTCATATGGCCCATCCAGCCCAATTCACTTCAT
Found at i:75491132 original size:29 final size:28
Alignment explanation
Indices: 75491056--75491194 Score: 115
Period size: 29 Copynumber: 4.9 Consensus size: 28
75491046 TACATACATG
75491056 CATATGGCCCA-CTAGGCCCAATCTCA-TT
1 CATATGGCCCATC-AGGCCCAAT-TCACTT
* * *
75491084 TATATGGCCCATCCGACCCAATTCACGTT
1 CATATGGCCCATCAGGCCCAATTCAC-TT
*
75491113 CATATGGCCAATCAGGCCCAATTCACATT
1 CATATGGCCCATCAGGCCCAATTCAC-TT
* *
75491142 CATATGGCCCGTTAGG-CCAATCTCA-TT
1 CATATGGCCCATCAGGCCCAAT-TCACTT
* * * *
75491169 TATATGGCCTATCCGGCCCAAATCAC
1 CATATGGCCCATCAGGCCCAATTCAC
75491195 ATTATATCCA
Statistics
Matches: 88, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
27 19 0.22
28 26 0.30
29 43 0.49
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (28 bp):
CATATGGCCCATCAGGCCCAATTCACTT
Found at i:75496422 original size:2 final size:2
Alignment explanation
Indices: 75496410--75496444 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
75496400 TCAACACCAT
*
75496410 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
75496445 CCAATAGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:75501659 original size:2 final size:2
Alignment explanation
Indices: 75501652--75501680 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
75501642 GTGGTAAGAG
75501652 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 T
75501681 GAAGAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:75505688 original size:40 final size:40
Alignment explanation
Indices: 75505633--75505882 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
75505623 AACATTGGAA
75505633 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
75505673 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
75505713 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
75505753 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
75505793 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
75505832 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
75505873 CTATATCCGG
1 ATATATCCGG
75505883 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:75513863 original size:40 final size:40
Alignment explanation
Indices: 75513808--75514057 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
75513798 GAACATTGGA
75513808 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
75513848 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
75513888 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
75513928 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
75513968 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
75514007 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
75514048 CTATATCCGG
1 ATATATCCGG
75514058 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:75515836 original size:42 final size:42
Alignment explanation
Indices: 75515798--75515880 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
75515788 GAAAGCTTGT
** * *
75515798 AAGAGCTGAACGGAAACCCATAAGTGTTAAGCAGAAGCTCAA
1 AAGAGCTGAACAAAAACCCATAAGAGTTAAACAGAAGCTCAA
* *
75515840 AAGAGCTGAACAAAAACTCATATGAGTTAAACAGAAGCTCA
1 AAGAGCTGAACAAAAACCCATAAGAGTTAAACAGAAGCTCA
75515881 TGAGATCTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (42 bp):
AAGAGCTGAACAAAAACCCATAAGAGTTAAACAGAAGCTCAA
Found at i:75519980 original size:42 final size:42
Alignment explanation
Indices: 75519859--75520022 Score: 211
Period size: 42 Copynumber: 3.9 Consensus size: 42
75519849 TACCGTACCA
* * * * *
75519859 ATGCTATATCCCAGATATGGTCTTACATGTAATCTCGTATCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * * *
75519901 ATGCTAATAGCCTAGATATGGTCTTACACGAAGTCTCATATCG
1 ATGC-CATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* *
75519944 ATGCCATATCCCAAATATGGTCTTACACGAAATCTCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
*
75519986 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCA
75520023 GTAACCCTAA
Statistics
Matches: 105, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 71 0.68
43 34 0.32
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:75520852 original size:12 final size:13
Alignment explanation
Indices: 75520835--75520863 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
75520825 AGATGGACAA
75520835 AATTTGGC-TTTT
1 AATTTGGCTTTTT
75520847 AATTTGGCTTTTT
1 AATTTGGCTTTTT
75520860 AATT
1 AATT
75520864 CATTTATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.59
Consensus pattern (13 bp):
AATTTGGCTTTTT
Found at i:75526561 original size:10 final size:10
Alignment explanation
Indices: 75526538--75526573 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
75526528 ATTGTTATTT
75526538 TTTATTTT-G
1 TTTATTTTAG
75526547 TTTATTTTAG
1 TTTATTTTAG
75526557 TTTATTTTAG
1 TTTATTTTAG
75526567 TGTTATT
1 T-TTATT
75526574 GGATTGTGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 8 0.32
10 12 0.48
11 5 0.20
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.72
Consensus pattern (10 bp):
TTTATTTTAG
Found at i:75531800 original size:28 final size:27
Alignment explanation
Indices: 75531737--75531806 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
75531727 ATAGTGAGTC
*
75531737 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
75531764 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
75531792 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
75531807 GTACAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:75539735 original size:28 final size:27
Alignment explanation
Indices: 75539672--75539741 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
75539662 ATAGTGAGTC
*
75539672 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
75539699 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
75539727 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
75539742 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:75542397 original size:26 final size:26
Alignment explanation
Indices: 75542361--75542476 Score: 196
Period size: 26 Copynumber: 4.5 Consensus size: 26
75542351 TGATACAAAT
75542361 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
75542387 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
75542413 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
75542439 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
75542465 TGATAATGGGTT
1 TGATAATAGGTT
75542477 TCATGATAAG
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 88 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:75544179 original size:27 final size:26
Alignment explanation
Indices: 75544100--75544214 Score: 113
Period size: 27 Copynumber: 4.3 Consensus size: 26
75544090 TGGAGGAAGC
* **
75544100 GTTCTGGTGGCTATGCCACAAACATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
**
75544127 AATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAT-TATCT
75544154 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* **
75544181 GTATCTGGTGACTCTATCACATTATCT
1 GT-TCTGGTGGCTCTGCCACATTATCT
*
75544208 ATTCTGG
1 GTTCTGG
75544215 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.70
28 16 0.22
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:75544207 original size:54 final size:54
Alignment explanation
Indices: 75544100--75544214 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 54
75544090 TGGAGGAAGC
* *
75544100 GTTCTGGTGGCTATGCCACAAACATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAACATCTAATCTGGTGACTCTACCACATATATCT
* * ** * *
75544154 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTATCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAACATCT-AATCTGGTGACTCTACCACATATATCT
*
75544208 ATTCTGG
1 GTTCTGG
75544215 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAACATCTAATCTGGTGACTCTACCACATATATCT
Found at i:75549696 original size:24 final size:24
Alignment explanation
Indices: 75549669--75549717 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
75549659 TACTTTCGAT
75549669 ATTTTATAATATATATTAGAATTA
1 ATTTTATAATATATATTAGAATTA
75549693 ATTTTATAATATATATTAGAATTA
1 ATTTTATAATATATATTAGAATTA
75549717 A
1 A
75549718 CATGAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (24 bp):
ATTTTATAATATATATTAGAATTA
Found at i:75553874 original size:66 final size:68
Alignment explanation
Indices: 75553798--75553984 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
75553788 TAGTACCACT
*
75553798 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
75553860 CACG
65 CACG
75553864 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
75553929 ATCACG
63 ATCACG
75553935 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
75553985 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:75553909 original size:71 final size:71
Alignment explanation
Indices: 75553821--75553984 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
75553811 CGATTTGTCT
75553821 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
75553886 CTTTCA
66 CTTTCA
75553892 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
75553957 CTTTCA
66 CTTTCA
75553963 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
75553985 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:75554022 original size:71 final size:70
Alignment explanation
Indices: 75553821--75554018 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
75553811 CGATTTGTCT
* * *
75553821 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
75553886 CTTTCA
65 CTTTCA
* * *
75553892 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
75553957 CTTTCA
65 CTTTCA
* *
75553963 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
75554019 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:75557697 original size:40 final size:39
Alignment explanation
Indices: 75557591--75557719 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 39
75557581 TGCTGGAAAT
* * * *
75557591 TATATCCGGGTTAAGACCCGAAGGCAAATGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
75557631 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
75557671 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
75557711 TATATCCGG
1 TATATCCGG
75557720 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
39 3 0.04
40 72 0.94
41 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:75564589 original size:66 final size:68
Alignment explanation
Indices: 75564513--75564699 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
75564503 TAGTACCACT
*
75564513 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
75564575 CACG
65 CACG
75564579 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
75564644 ATCACG
63 ATCACG
75564650 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
75564700 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Done.