Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 137 of 145
Found at i:45187744 original size:17 final size:17
Alignment explanation
Indices: 45187719--45187753 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
45187709 AAGGACCCAA
* *
45187719 ATTACCCGAATTACCCG
1 ATTAACCGAATTAACCG
45187736 ATTAACCGAATTAACCG
1 ATTAACCGAATTAACCG
45187753 A
1 A
45187754 ATTACCTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.29, G:0.11, T:0.23
Consensus pattern (17 bp):
ATTAACCGAATTAACCG
Found at i:45187773 original size:20 final size:20
Alignment explanation
Indices: 45187744--45187791 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
45187734 CGATTAACCG
* * *
45187744 AATTAACCGAATTACCTAAA
1 AATTACCCGAACTACCCAAA
*
45187764 AATTACCCGAACTACCCGAA
1 AATTACCCGAACTACCCAAA
45187784 AATTACCC
1 AATTACCC
45187792 AAAAAGTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.44, C:0.29, G:0.06, T:0.21
Consensus pattern (20 bp):
AATTACCCGAACTACCCAAA
Found at i:45189007 original size:31 final size:29
Alignment explanation
Indices: 45188938--45189011 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
45188928 ACAAAATAAT
**
45188938 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATGGCA
*
45188967 AACATAAGTGACTAAAATGTAACATGAGGCA
1 AACATAAGTGACTAAAACGTAACAT--GGCA
*
45188998 AACAAAAGTGACTA
1 AACATAAGTGACTA
45189012 CTTTTGTAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATGGCA
Found at i:45191892 original size:13 final size:13
Alignment explanation
Indices: 45191874--45191903 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
45191864 CTCCAAAATA
45191874 CATTAAAACAATT
1 CATTAAAACAATT
45191887 CATTAAAACAATT
1 CATTAAAACAATT
45191900 CATT
1 CATT
45191904 GTAGTCCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (13 bp):
CATTAAAACAATT
Found at i:45199635 original size:41 final size:41
Alignment explanation
Indices: 45199576--45199717 Score: 155
Period size: 41 Copynumber: 3.5 Consensus size: 41
45199566 TGACCTTTCA
* *
45199576 GGGCTTTAGTGGCGTTTTTGAAGAAGCGCCGCTAATGCTCG
1 GGGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCG
*
45199617 GGGCTTTAGTGGCATTTTTGAAGAA--G-CGCTAATGCTCG
1 GGGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCG
* * * * * * *
45199655 GTGCTTTAGCGGCGTTTTTGAAAAAGCTCTGCTAGTTCTCG
1 GGGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCG
* *
45199696 GGCCTTTAGCGGCACTTTTGAA
1 GGGCTTTAGCGGCATTTTTGAA
45199718 AATTCAATTT
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
38 33 0.39
39 1 0.01
41 51 0.60
ACGTcount: A:0.18, C:0.19, G:0.30, T:0.32
Consensus pattern (41 bp):
GGGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCG
Found at i:45199661 original size:38 final size:38
Alignment explanation
Indices: 45199576--45199681 Score: 149
Period size: 38 Copynumber: 2.7 Consensus size: 38
45199566 TGACCTTTCA
45199576 GGGCTTTAGTGGCGTTTTTGAAGAAGCGCCGCTAATGCTCG
1 GGGCTTTAGTGGCGTTTTTGAAGAA--G-CGCTAATGCTCG
*
45199617 GGGCTTTAGTGGCATTTTTGAAGAAGCGCTAATGCTCG
1 GGGCTTTAGTGGCGTTTTTGAAGAAGCGCTAATGCTCG
* * *
45199655 GTGCTTTAGCGGCGTTTTTGAAAAAGC
1 GGGCTTTAGTGGCGTTTTTGAAGAAGC
45199682 TCTGCTAGTT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
38 35 0.58
39 1 0.02
41 24 0.40
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.31
Consensus pattern (38 bp):
GGGCTTTAGTGGCGTTTTTGAAGAAGCGCTAATGCTCG
Found at i:45207825 original size:29 final size:29
Alignment explanation
Indices: 45207793--45207848 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
45207783 TCCGCATCCC
45207793 TCTTCATATTCAGTATCCATTTCATGCCT
1 TCTTCATATTCAGTATCCATTTCATGCCT
* * *
45207822 TCTTCATATTTAGTATTCATTTGATGC
1 TCTTCATATTCAGTATCCATTTCATGC
45207849 ATCTCTCGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.48
Consensus pattern (29 bp):
TCTTCATATTCAGTATCCATTTCATGCCT
Found at i:45209259 original size:27 final size:27
Alignment explanation
Indices: 45209228--45209288 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
45209218 ATTATGCCAA
* *
45209228 ATTCTTTGTTAAATTTTTTGGTTTGAT
1 ATTCTTTGTTAAATTTGTTAGTTTGAT
45209255 ATTCTTTGTTAAATTTGTTAGTTTGAT
1 ATTCTTTGTTAAATTTGTTAGTTTGAT
45209282 ATTCTTT
1 ATTCTTT
45209289 CAAAAGTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.20, C:0.05, G:0.13, T:0.62
Consensus pattern (27 bp):
ATTCTTTGTTAAATTTGTTAGTTTGAT
Found at i:45214075 original size:13 final size:14
Alignment explanation
Indices: 45214045--45214094 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
45214035 TTATTTATGA
45214045 ATTATTATTATATC
1 ATTATTATTATATC
45214059 ATTA-TATTATA-C
1 ATTATTATTATATC
** *
45214071 TATTAGCATTGTATC
1 -ATTATTATTATATC
45214086 ATTATTATT
1 ATTATTATT
45214095 TAAATAAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
12 1 0.03
13 11 0.38
14 16 0.55
15 1 0.03
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (14 bp):
ATTATTATTATATC
Found at i:45215443 original size:13 final size:14
Alignment explanation
Indices: 45215413--45215462 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
45215403 TTATTTATGA
45215413 ATTATTATTATATC
1 ATTATTATTATATC
45215427 ATTA-TATTATA-C
1 ATTATTATTATATC
** *
45215439 TATTAGCATTGTATC
1 -ATTATTATTATATC
45215454 ATTATTATT
1 ATTATTATT
45215463 TAAATAAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
12 1 0.03
13 11 0.38
14 16 0.55
15 1 0.03
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (14 bp):
ATTATTATTATATC
Found at i:45215864 original size:20 final size:21
Alignment explanation
Indices: 45215836--45215874 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
45215826 TATACACACA
*
45215836 TTTTTTTTATTTT-TTTATAG
1 TTTTATTTATTTTATTTATAG
45215856 TTTTATTTATTTTATTTAT
1 TTTTATTTATTTTATTTAT
45215875 TGTATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (21 bp):
TTTTATTTATTTTATTTATAG
Found at i:45215886 original size:9 final size:8
Alignment explanation
Indices: 45215837--45215884 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
45215827 ATACACACAT
45215837 TTTTTTTA
1 TTTTTTTA
45215845 TTTTTTTA
1 TTTTTTTA
**
45215853 TAGTTTTA
1 TTTTTTTA
45215861 TTTATTTTA
1 TTT-TTTTA
*
45215870 TTTATTGTA
1 TTT-TTTTA
45215879 TTTTTT
1 TTTTTT
45215885 GTTTTACTCG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
8 17 0.52
9 16 0.48
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (8 bp):
TTTTTTTA
Found at i:45226736 original size:109 final size:109
Alignment explanation
Indices: 45226508--45226727 Score: 440
Period size: 109 Copynumber: 2.0 Consensus size: 109
45226498 TATTATTTTT
45226508 TCAAAAAAAAAAGATTAAATACTCCTCTGATACAAATGTTAAGAGTGAAAATTTGGGTTGTATAT
1 TCAAAAAAAAAAGATTAAATACTCCTCTGATACAAATGTTAAGAGTGAAAATTTGGGTTGTATAT
45226573 CGAATTAAGTAACCGGAATGTGGTGCTTGGGTTGTCATCACATC
66 CGAATTAAGTAACCGGAATGTGGTGCTTGGGTTGTCATCACATC
45226617 TCAAAAAAAAAAGATTAAATACTCCTCTGATACAAATGTTAAGAGTGAAAATTTGGGTTGTATAT
1 TCAAAAAAAAAAGATTAAATACTCCTCTGATACAAATGTTAAGAGTGAAAATTTGGGTTGTATAT
45226682 CGAATTAAGTAACCGGAATGTGGTGCTTGGGTTGTCATCACATC
66 CGAATTAAGTAACCGGAATGTGGTGCTTGGGTTGTCATCACATC
45226726 TC
1 TC
45226728 GTGTAAAAAG
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 111 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.30
Consensus pattern (109 bp):
TCAAAAAAAAAAGATTAAATACTCCTCTGATACAAATGTTAAGAGTGAAAATTTGGGTTGTATAT
CGAATTAAGTAACCGGAATGTGGTGCTTGGGTTGTCATCACATC
Found at i:45233702 original size:22 final size:19
Alignment explanation
Indices: 45233661--45233721 Score: 68
Period size: 19 Copynumber: 3.0 Consensus size: 19
45233651 AATCCTCGAG
45233661 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
45233680 GATATGCAATCTTATAAGATAT
1 GATATGCAATC-T-T-AGATAT
* *
45233702 GATTTTGTAATCTTAGATAT
1 GA-TATGCAATCTTAGATAT
45233722 TTAATTTGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
19 11 0.31
20 7 0.19
21 2 0.06
22 9 0.25
23 7 0.19
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:45250652 original size:34 final size:34
Alignment explanation
Indices: 45250604--45250671 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
45250594 CTCCCTCTCC
45250604 ATCCATCTTCATATTCAATATTCATTTCATGCAT
1 ATCCATCTTCATATTCAATATTCATTTCATGCAT
* * *
45250638 ATCCTTCTTCATATTCAGTATTCATTTGATGCAT
1 ATCCATCTTCATATTCAATATTCATTTCATGCAT
45250672 TTCTCGTTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.26, C:0.22, G:0.06, T:0.46
Consensus pattern (34 bp):
ATCCATCTTCATATTCAATATTCATTTCATGCAT
Found at i:45259043 original size:14 final size:15
Alignment explanation
Indices: 45259012--45259045 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
45259002 AATTATGGAA
*
45259012 ATATAAAAGATGTGT
1 ATATAAAAGATATGT
45259027 ATATAAAAG-TATGT
1 ATATAAAAGATATGT
45259041 ATATA
1 ATATA
45259046 TGTGTATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (15 bp):
ATATAAAAGATATGT
Found at i:45266196 original size:6 final size:6
Alignment explanation
Indices: 45266185--45266220 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
45266175 TTGACCTCTC
45266185 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
45266221 TCTATTTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
CTTTTT
Found at i:45266228 original size:8 final size:7
Alignment explanation
Indices: 45266186--45266229 Score: 51
Period size: 6 Copynumber: 6.7 Consensus size: 7
45266176 TGACCTCTCC
45266186 TTTTTC-
1 TTTTTCT
45266192 TTTTTC-
1 TTTTTCT
45266198 TTTTTC-
1 TTTTTCT
45266204 TTTTTC-
1 TTTTTCT
45266210 TTTTTCT
1 TTTTTCT
45266217 TTTTTCT
1 TTTTTCT
45266224 ATTTTT
1 -TTTTT
45266230 GACTTTGATT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 24 0.67
7 7 0.19
8 5 0.14
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTCT
Found at i:45266248 original size:8 final size:8
Alignment explanation
Indices: 45266237--45266294 Score: 55
Period size: 8 Copynumber: 7.0 Consensus size: 8
45266227 TTTGACTTTG
45266237 ATTTTTTT
1 ATTTTTTT
45266245 ATTTTTGTT
1 ATTTTT-TT
45266254 -TTTCTTTT
1 ATTT-TTTT
*
45266262 GATTTTTTG
1 -ATTTTTTT
*
45266271 ATTTTTTG
1 ATTTTTTT
*
45266279 ATTTTTTG
1 ATTTTTTT
45266287 ATTTTTTT
1 ATTTTTTT
45266295 TTTGAGTCTG
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
8 34 0.77
9 7 0.16
10 3 0.07
ACGTcount: A:0.10, C:0.02, G:0.09, T:0.79
Consensus pattern (8 bp):
ATTTTTTT
Found at i:45266277 original size:48 final size:49
Alignment explanation
Indices: 45266192--45266294 Score: 120
Period size: 48 Copynumber: 2.1 Consensus size: 49
45266182 CTCCTTTTTC
* ** *
45266192 TTTTTCTTTTTCTTTTTCTTTTTCTTTTTTCTATTTTTGA-CTTTGATT
1 TTTTTATTTTTCTTTTTCTTTTGATTTTTTATATTTTTGATCTTTGATT
* *
45266240 TTTTTATTTTTGTTTTTCTTTTGATTTTTTGAT-TTTTTGATTTTTTGATT
1 TTTTTATTTTTCTTTTTCTTTTGATTTTTT-ATATTTTTGA-TCTTTGATT
45266290 TTTTT
1 TTTTT
45266295 TTTGAGTCTG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
48 33 0.72
49 1 0.02
50 12 0.26
ACGTcount: A:0.08, C:0.07, G:0.07, T:0.79
Consensus pattern (49 bp):
TTTTTATTTTTCTTTTTCTTTTGATTTTTTATATTTTTGATCTTTGATT
Found at i:45266279 original size:16 final size:16
Alignment explanation
Indices: 45266233--45266293 Score: 77
Period size: 16 Copynumber: 3.7 Consensus size: 16
45266223 TATTTTTGAC
*
45266233 TTTGATTTTTTTATTT
1 TTTGATTTTTTGATTT
**
45266249 TTGTTTTTCTTTTGATTT
1 TT-TGATT-TTTTGATTT
45266267 TTTGATTTTTTGATTT
1 TTTGATTTTTTGATTT
45266283 TTTGATTTTTT
1 TTTGATTTTTT
45266294 TTTTGAGTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
16 22 0.58
17 6 0.16
18 10 0.26
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.79
Consensus pattern (16 bp):
TTTGATTTTTTGATTT
Found at i:45280973 original size:18 final size:19
Alignment explanation
Indices: 45280927--45280965 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
45280917 TATAAATGGG
*
45280927 TAAACAATAAAGGCAAATAA
1 TAAA-AATAAAAGCAAATAA
45280947 TAAAAATAAAAGC-AATAA
1 TAAAAATAAAAGCAAATAA
45280965 T
1 T
45280966 GATAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 8 0.44
20 4 0.22
ACGTcount: A:0.67, C:0.08, G:0.08, T:0.18
Consensus pattern (19 bp):
TAAAAATAAAAGCAAATAA
Found at i:45289008 original size:12 final size:12
Alignment explanation
Indices: 45288991--45289015 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45288981 TTCTCACCAA
45288991 AAATGTTAGAAG
1 AAATGTTAGAAG
45289003 AAATGTTAGAAG
1 AAATGTTAGAAG
45289015 A
1 A
45289016 GATACTAATA
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:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (12 bp):
AAATGTTAGAAG
Found at i:45291776 original size:31 final size:30
Alignment explanation
Indices: 45291740--45291811 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 30
45291730 ATTGAAGCAC
* * *
45291740 CAAATTATAAAAAAGTATAAAGTCCAAATCT
1 CAAATT-TAAAAAAGTACAAAGACCAAAACT
* *
45291771 CAAATTTTAACATAGTACAAAGACCAAAACT
1 CAAA-TTTAAAAAAGTACAAAGACCAAAACT
*
45291802 GAAATTTAAA
1 CAAATTTAAA
45291812 TAATCATACA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
30 5 0.15
31 26 0.79
32 2 0.06
ACGTcount: A:0.54, C:0.14, G:0.07, T:0.25
Consensus pattern (30 bp):
CAAATTTAAAAAAGTACAAAGACCAAAACT
Found at i:45298834 original size:14 final size:13
Alignment explanation
Indices: 45298815--45298853 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
45298805 AAAATAAGTC
45298815 TAAAAAATATAAAA
1 TAAAAAAT-TAAAA
*
45298829 TAAAAAATTAATA
1 TAAAAAATTAAAA
45298842 TGAAAAAATTAA
1 T-AAAAAATTAA
45298854 CAACTCTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (13 bp):
TAAAAAATTAAAA
Found at i:45301205 original size:7 final size:7
Alignment explanation
Indices: 45301195--45301223 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
45301185 AAAAAGAAGA
45301195 GAAAATT
1 GAAAATT
45301202 GAAAATT
1 GAAAATT
45301209 GAAAATT
1 GAAAATT
45301216 GAAAATT
1 GAAAATT
45301223 G
1 G
45301224 GAAGAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.17, T:0.28
Consensus pattern (7 bp):
GAAAATT
Found at i:45302720 original size:29 final size:29
Alignment explanation
Indices: 45302688--45302743 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
45302678 TCCGCATCCC
45302688 TCTTCATATTCAGTATCCATTTCATGCCT
1 TCTTCATATTCAGTATCCATTTCATGCCT
* * *
45302717 TCTTCATATTTAGTATTCATTTGATGC
1 TCTTCATATTCAGTATCCATTTCATGC
45302744 ATCTCTCGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.48
Consensus pattern (29 bp):
TCTTCATATTCAGTATCCATTTCATGCCT
Found at i:45305433 original size:47 final size:48
Alignment explanation
Indices: 45305381--45305483 Score: 113
Period size: 49 Copynumber: 2.2 Consensus size: 48
45305371 GATATACATG
* * *
45305381 TACATACTTATATATATTT-TCCATATTTCGTAATTTTAAAATATATA
1 TACATACATATATATATTTATACATATTTCATAATTTTAAAATATATA
* * * *
45305428 TACATACATATGTTTCTTTCATATATATTTCATAATTTTAAAATATATA
1 TACATACATATATATATTT-ATACATATTTCATAATTTTAAAATATATA
45305477 -A-ATACAT
1 TACATACAT
45305484 GCATACATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
47 21 0.45
48 1 0.02
49 25 0.53
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.48
Consensus pattern (48 bp):
TACATACATATATATATTTATACATATTTCATAATTTTAAAATATATA
Found at i:45307590 original size:7 final size:8
Alignment explanation
Indices: 45307563--45307587 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
45307553 AATACATTTT
45307563 CCATTTCC
1 CCATTTCC
45307571 CCATTTCC
1 CCATTTCC
45307579 CCATTTCC
1 CCATTTCC
45307587 C
1 C
45307588 ATTAGACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.52, G:0.00, T:0.36
Consensus pattern (8 bp):
CCATTTCC
Found at i:45311179 original size:29 final size:29
Alignment explanation
Indices: 45311147--45311202 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
45311137 TCCACATCCC
45311147 TCTTCATATTCAGTATCCATTTCATGCCT
1 TCTTCATATTCAGTATCCATTTCATGCCT
* * *
45311176 TCTTCATATTTAGTATTCATTTGATGC
1 TCTTCATATTCAGTATCCATTTCATGC
45311203 ATCTCTCGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.48
Consensus pattern (29 bp):
TCTTCATATTCAGTATCCATTTCATGCCT
Found at i:45313669 original size:35 final size:35
Alignment explanation
Indices: 45313621--45313711 Score: 91
Period size: 35 Copynumber: 2.6 Consensus size: 35
45313611 TACTATTAGG
* *
45313621 TTCTATTGTTTTTTTTTATTTTTTATTTA-GTT-T
1 TTCTATTATTTTTTTTTATTTTTTATATAGGTTAT
*
45313654 TTACCTATTATTTTTTCTTT-TTATTTATATAGGTTAT
1 TT--CTATTATTTTTT-TTTATTTTTTATATAGGTTAT
*
45313691 TTCT-TTATTTTATTTTATTTT
1 TTCTATTATTTTTTTTTATTTT
45313712 CGTCCTTACT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
33 5 0.11
34 11 0.23
35 22 0.47
36 6 0.13
37 3 0.06
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.74
Consensus pattern (35 bp):
TTCTATTATTTTTTTTTATTTTTTATATAGGTTAT
Found at i:45314647 original size:7 final size:8
Alignment explanation
Indices: 45314620--45314644 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
45314610 AATACATTTT
45314620 CCATTTCC
1 CCATTTCC
45314628 CCATTTCC
1 CCATTTCC
45314636 CCATTTCC
1 CCATTTCC
45314644 C
1 C
45314645 ATTAGACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.52, G:0.00, T:0.36
Consensus pattern (8 bp):
CCATTTCC
Found at i:45315305 original size:24 final size:24
Alignment explanation
Indices: 45315278--45315323 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
45315268 ACATTTAGTA
45315278 TTTATATAATAAA-TATTTTTAATT
1 TTTA-ATAATAAAGTATTTTTAATT
**
45315302 TTTAATTTTAAAGTATTTTTAA
1 TTTAATAATAAAGTATTTTTAA
45315324 AATACTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
TTTAATAATAAAGTATTTTTAATT
Found at i:45316613 original size:27 final size:27
Alignment explanation
Indices: 45316575--45316635 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
45316565 ATTATGCCAA
45316575 ATTCTTTGTTAAATTTGTTGGTTTGAT
1 ATTCTTTGTTAAATTTGTTGGTTTGAT
*
45316602 ATTCTTTGTTAAATTTTTTGGTTTGAT
1 ATTCTTTGTTAAATTTGTTGGTTTGAT
45316629 ATTCTTT
1 ATTCTTT
45316636 CAAAAGTACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.18, C:0.05, G:0.15, T:0.62
Consensus pattern (27 bp):
ATTCTTTGTTAAATTTGTTGGTTTGAT
Found at i:45327917 original size:29 final size:29
Alignment explanation
Indices: 45327885--45327940 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
45327875 TCCACATCCC
45327885 TCTTCATATTCAGTATCCATTTCATGCCT
1 TCTTCATATTCAGTATCCATTTCATGCCT
* * *
45327914 TCTTCATATTTAGTATTCATTTGATGC
1 TCTTCATATTCAGTATCCATTTCATGC
45327941 ATCTCTCGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.48
Consensus pattern (29 bp):
TCTTCATATTCAGTATCCATTTCATGCCT
Found at i:45336201 original size:19 final size:19
Alignment explanation
Indices: 45336154--45336203 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
45336144 TTTTTCGTTT
*
45336154 TTTTAAATAAAAGTCGACCA
1 TTTTAAA-AAAAGTCAACCA
*
45336174 TTTTCAAAAAAGGTCAACCA
1 TTTT-AAAAAAAGTCAACCA
45336194 -TTTAAAAAAA
1 TTTTAAAAAAA
45336204 ATGACTTCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 6 0.23
19 3 0.12
20 14 0.54
21 3 0.12
ACGTcount: A:0.50, C:0.14, G:0.08, T:0.28
Consensus pattern (19 bp):
TTTTAAAAAAAGTCAACCA
Found at i:45336892 original size:26 final size:26
Alignment explanation
Indices: 45336850--45336901 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
45336840 TTGAGTCGAG
* *
45336850 ATGGGTCGAAGGTCCCTTGCGTTTGA
1 ATGGGTCGAAGGACCCTTGAGTTTGA
45336876 ATGGGTCTG-AGGACCCTTGAGTTTGA
1 ATGGGTC-GAAGGACCCTTGAGTTTGA
45336902 GTTAGTCGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.17, C:0.17, G:0.35, T:0.31
Consensus pattern (26 bp):
ATGGGTCGAAGGACCCTTGAGTTTGA
Found at i:45336913 original size:26 final size:26
Alignment explanation
Indices: 45336884--45336942 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
45336874 GAATGGGTCT
*
45336884 GAGGACCCTTGAGTTTGAGTTAGTCG
1 GAGGACCCTTGAGGTTGAGTTAGTCG
* * *
45336910 GAGGTCCCTTGAGGTTGGGTTGGTCG
1 GAGGACCCTTGAGGTTGAGTTAGTCG
45336936 GAGGACC
1 GAGGACC
45336943 ATAAGCAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.15, C:0.17, G:0.41, T:0.27
Consensus pattern (26 bp):
GAGGACCCTTGAGGTTGAGTTAGTCG
Found at i:45340730 original size:2 final size:2
Alignment explanation
Indices: 45340719--45340752 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
45340709 AAGTTAAATT
45340719 TA TA TA -A 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
45340753 TACCTACCCG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45343913 original size:40 final size:39
Alignment explanation
Indices: 45343872--45343997 Score: 130
Period size: 37 Copynumber: 3.2 Consensus size: 39
45343862 TGGCACTCAG
* * *
45343872 TGCCTCATCGGATAATTCAAAGTAATAAATTGACACCCAG
1 TGCCTCATCGGATAATCCGAAGT-ATAAATTGACACCCAA
* * * *
45343912 TGTCTCATCGGCTAAACCGAAG--TAAATTGGCACCCAA
1 TGCCTCATCGGATAATCCGAAGTATAAATTGACACCCAA
*
45343949 TGCCTCATCGAATTAATCCGAAGTAGTAAATTGACACCCAA
1 TGCCTCATCGGA-TAATCCGAAGTA-TAAATTGACACCCAA
*
45343990 TGTCTCAT
1 TGCCTCAT
45343998 TGACCCGAAG
Statistics
Matches: 69, Mismatches: 13, Indels: 7
0.78 0.15 0.08
Matches are distributed among these distances:
37 22 0.32
38 9 0.13
40 17 0.25
41 21 0.30
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (39 bp):
TGCCTCATCGGATAATCCGAAGTATAAATTGACACCCAA
Found at i:45343987 original size:41 final size:39
Alignment explanation
Indices: 45343872--45343997 Score: 114
Period size: 41 Copynumber: 3.2 Consensus size: 39
45343862 TGGCACTCAG
* * * *
45343872 TGCCTCATCGGATAATTCAAAGTAATAAATTGACACCCAG
1 TGCCTCATC-GATAATCCGAAGTAGTAAATTGACACCCAA
* * * *
45343912 TGTCTCATCGGCTAAACCG-A--AGTAAATTGGCACCCAA
1 TGCCTCATC-GATAATCCGAAGTAGTAAATTGACACCCAA
45343949 TGCCTCATCGAATTAATCCGAAGTAGTAAATTGACACCCAA
1 TGCCTCATCG-A-TAATCCGAAGTAGTAAATTGACACCCAA
*
45343990 TGTCTCAT
1 TGCCTCAT
45343998 TGACCCGAAG
Statistics
Matches: 68, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
36 1 0.01
37 22 0.32
38 6 0.09
39 2 0.03
40 14 0.21
41 23 0.34
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (39 bp):
TGCCTCATCGATAATCCGAAGTAGTAAATTGACACCCAA
Found at i:45344178 original size:15 final size:15
Alignment explanation
Indices: 45344131--45344180 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
45344121 CAATTCAAAT
*
45344131 AATCAATATATATTC
1 AATCAATATAAATTC
45344146 AAT-ATATATACCAATTC
1 AATCA-ATATA--AATTC
45344163 AATCAATATAAATTC
1 AATCAATATAAATTC
45344178 AAT
1 AAT
45344181 AAATTTATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 1 0.03
15 16 0.53
17 12 0.40
18 1 0.03
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (15 bp):
AATCAATATAAATTC
Found at i:45348202 original size:22 final size:22
Alignment explanation
Indices: 45348172--45348214 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
45348162 ACAACAAAAC
45348172 AGGCATTTAGCGGCGCTTTTTT
1 AGGCATTTAGCGGCGCTTTTTT
*
45348194 AGGCCTTTAGCGGCGCTTTTT
1 AGGCATTTAGCGGCGCTTTTT
45348215 AGCGCCGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.12, C:0.21, G:0.28, T:0.40
Consensus pattern (22 bp):
AGGCATTTAGCGGCGCTTTTTT
Found at i:45348362 original size:43 final size:43
Alignment explanation
Indices: 45348308--45348535 Score: 312
Period size: 43 Copynumber: 5.3 Consensus size: 43
45348298 TTTTATAACT
*
45348308 AAACGTCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *** *
45348351 AAACGCCGCTAAAGACTATGACCTTTAAAAGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
45348394 AAATGCCGCTAAAGACCATGACCTTTAACGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *
45348437 AAACGTCGCTGAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * **
45348480 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
45348523 AAATGCCGCTAAA
1 AAACGCCGCTAAA
45348536 AGTACAATTC
Statistics
Matches: 161, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 161 1.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:45353014 original size:52 final size:52
Alignment explanation
Indices: 45352957--45353060 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
45352947 AACACCGCTA
*
45352957 AATGTTTTGCTATATAAAATGGTTATTTTTTAAAGTAAAATTATTTTTTGTG
1 AATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTG
*
45353009 AATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAATTTATTTTTTGTG
1 AATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTG
45353061 GCGTTTTTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.32, C:0.03, G:0.13, T:0.52
Consensus pattern (52 bp):
AATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTG
Found at i:45353201 original size:133 final size:133
Alignment explanation
Indices: 45353013--45353476 Score: 602
Period size: 133 Copynumber: 3.5 Consensus size: 133
45353003 TTTGTGAATG
* *
45353013 TTTTGCTATATAAAATGGCTATTTTTTAAAGTAAATTTATTTTTTGTGGCGTTTTTTATAAAAAC
1 TTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAAC
45353078 GCCGTTAAATGTTTTGCTATATAAAATAGGCGCCGCTATTGCTTACCTTTTGCGGCGTTTTTATA
66 GCCGTTAAATGTTTTGCTATATAAAATAGGCGCCGCTATTGCTTACCTTTTGCGGCGTTTTTATA
45353143 ATA
131 ATA
*
45353146 TTTTGCTATATAAAATGATTATTTTTTAAAGTAAAATTA-TTTTTGTGGCGTTTTTTATAAAAAA
1 TTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTAT---AAA
* * * * ** *** ********
45353210 AACACCGCTAAAGGTTTTGCTATATAAAAT----G--ACTATTTTTTAAAGTAAAATTATTTTTT
63 AACGCCGTTAAATGTTTTGCTATATAAAATAGGCGCCGCTATTGCTTACCTTTTGCGGCGTTTTT
* * *
45353269 GTGGATG
128 AT-AATA
* *
45353276 TTTTGCTATATAAAATGGCTATTTTTTAAAGTAAATTTATTTTTTGTGGCGTTTTTTATAAAAAC
1 TTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAAC
45353341 GCCGTTAAATGTTTTGCTATATAAAATAGGCGCCGCTATTGCTTACCTTTTGCGGCGTTTTTATA
66 GCCGTTAAATGTTTTGCTATATAAAATAGGCGCCGCTATTGCTTACCTTTTGCGGCGTTTTTATA
45353406 ATA
131 ATA
*
45353409 TTTTGCTATATAAAATGATTATTTTTTAAAGTAAAATTA-TTTTTGTGGCGTTTTTTATAAAAAC
1 TTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAAC
45353473 GCCG
66 GCCG
45353477 CTATTGCTGA
Statistics
Matches: 271, Mismatches: 49, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
128 30 0.11
129 15 0.06
130 38 0.14
131 20 0.07
132 49 0.18
133 74 0.27
134 15 0.06
135 30 0.11
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (133 bp):
TTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAAC
GCCGTTAAATGTTTTGCTATATAAAATAGGCGCCGCTATTGCTTACCTTTTGCGGCGTTTTTATA
ATA
Found at i:45353279 original size:52 final size:52
Alignment explanation
Indices: 45353223--45353324 Score: 186
Period size: 52 Copynumber: 2.0 Consensus size: 52
45353213 ACCGCTAAAG
45353223 GTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTGGAT
1 GTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTGGAT
* *
45353275 GTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAATTTATTTTTTGTGG
1 GTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTGG
45353325 CGTTTTTTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.51
Consensus pattern (52 bp):
GTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTGGAT
Found at i:45353412 original size:263 final size:263
Alignment explanation
Indices: 45352920--45353471 Score: 1029
Period size: 263 Copynumber: 2.1 Consensus size: 263
45352910 TTATAAATTG
* * **
45352920 ATTATTTTTTGTGGCGTTTTTTAT---GAAAACACCGCTAAATGTTTTGCTATATAAAATGGTTA
1 ATTA-TTTTTGTGGCGTTTTTTATAAAAAAAACACCGCTAAAGGTTTTGCTATATAAAATGACTA
45352982 TTTTTTAAAGTAAAATTATTTTTTGTGAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAA
65 TTTTTTAAAGTAAAATTATTTTTTGTGAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAA
45353047 ATTTATTTTTTGTGGCGTTTTTTATAAAAACGCCGTTAAATGTTTTGCTATATAAAATAGGCGCC
130 ATTTATTTTTTGTGGCGTTTTTTATAAAAACGCCGTTAAATGTTTTGCTATATAAAATAGGCGCC
45353112 GCTATTGCTTACCTTTTGCGGCGTTTTTATAATATTTTGCTATATAAAATGATTATTTTTTAAAG
195 GCTATTGCTTACCTTTTGCGGCGTTTTTATAATATTTTGCTATATAAAATGATTATTTTTTAAAG
45353177 TAAA
260 TAAA
45353181 ATTATTTTTGTGGCGTTTTTTATAAAAAAAACACCGCTAAAGGTTTTGCTATATAAAATGACTAT
1 ATTATTTTTGTGGCGTTTTTTATAAAAAAAACACCGCTAAAGGTTTTGCTATATAAAATGACTAT
*
45353246 TTTTTAAAGTAAAATTATTTTTTGTGGATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAA
66 TTTTTAAAGTAAAATTATTTTTTGTGAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAA
45353311 TTTATTTTTTGTGGCGTTTTTTATAAAAACGCCGTTAAATGTTTTGCTATATAAAATAGGCGCCG
131 TTTATTTTTTGTGGCGTTTTTTATAAAAACGCCGTTAAATGTTTTGCTATATAAAATAGGCGCCG
45353376 CTATTGCTTACCTTTTGCGGCGTTTTTATAATATTTTGCTATATAAAATGATTATTTTTTAAAGT
196 CTATTGCTTACCTTTTGCGGCGTTTTTATAATATTTTGCTATATAAAATGATTATTTTTTAAAGT
45353441 AAA
261 AAA
45353444 ATTATTTTTGTGGCGTTTTTTATAAAAA
1 ATTATTTTTGTGGCGTTTTTTATAAAAA
45353472 CGCCGCTATT
Statistics
Matches: 283, Mismatches: 5, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
260 19 0.07
261 4 0.01
263 260 0.92
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.46
Consensus pattern (263 bp):
ATTATTTTTGTGGCGTTTTTTATAAAAAAAACACCGCTAAAGGTTTTGCTATATAAAATGACTAT
TTTTTAAAGTAAAATTATTTTTTGTGAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAA
TTTATTTTTTGTGGCGTTTTTTATAAAAACGCCGTTAAATGTTTTGCTATATAAAATAGGCGCCG
CTATTGCTTACCTTTTGCGGCGTTTTTATAATATTTTGCTATATAAAATGATTATTTTTTAAAGT
AAA
Found at i:45353530 original size:115 final size:118
Alignment explanation
Indices: 45353409--45353625 Score: 368
Period size: 115 Copynumber: 1.9 Consensus size: 118
45353399 TTTTATAATA
* * *
45353409 TTTTGCTATATAAAATGATTATTTTTTAAAGTAAAATTA-TTTTTGTGGCGTTTTT-TATAAAAA
1 TTTTGCTATATAAAATGACTATTTTTAAAAGTAAAATTATTTTTTGTGGCGTTTTTATAAAAAAA
45353472 CGCCGCTATTGCTGACCTTTTGCGGCGTTTTT-TATGAAAACGCCGCTAAATG
66 CGCCGCTATTGCTGACCTTTTGCGGCGTTTTTATATGAAAACGCCGCTAAATG
45353524 TTTTGCTATATAAAATGACTATTTTTAAAAGTAAAATTATTTTTTGTGGCGTTTTTATAAAAAAA
1 TTTTGCTATATAAAATGACTATTTTTAAAAGTAAAATTATTTTTTGTGGCGTTTTTATAAAAAAA
* *
45353589 CGCCGCTGTTGCTTACCTTTTGCGGCGTTTTTATATG
66 CGCCGCTATTGCTGACCTTTTGCGGCGTTTTTATATG
45353626 TTTTGCTATG
Statistics
Matches: 94, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
115 37 0.39
116 16 0.17
117 37 0.39
118 4 0.04
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (118 bp):
TTTTGCTATATAAAATGACTATTTTTAAAAGTAAAATTATTTTTTGTGGCGTTTTTATAAAAAAA
CGCCGCTATTGCTGACCTTTTGCGGCGTTTTTATATGAAAACGCCGCTAAATG
Found at i:45355016 original size:41 final size:41
Alignment explanation
Indices: 45354958--45355155 Score: 274
Period size: 41 Copynumber: 4.9 Consensus size: 41
45354948 AAATGTTTTT
* ** *
45354958 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
*
45354999 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGTATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
* *
45355040 GCGCCGCTTTTTTAAAAACGCCGCTAAAGATCTAAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
* *
45355081 GTGGCGCTTTTTCAAAAACGCCGCTAAAGA--TGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
* *
45355120 GCGGCACTTTTTTTAAAAGCGCCGCTAAAGATCTGA
1 GCGGCGC-TTTTTTAAAAACGCCGCTAAAGATCTGA
45355156 AAGGTAGAAA
Statistics
Matches: 138, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 13 0.09
40 21 0.15
41 101 0.73
42 3 0.02
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (41 bp):
GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:45358356 original size:20 final size:19
Alignment explanation
Indices: 45358327--45358364 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
45358317 TATTCAAAAG
*
45358327 TTATAAAATAAAGTTAATT
1 TTATAAAATAAAATTAATT
45358346 TTATCAAAATAAAATTAAT
1 TTAT-AAAATAAAATTAAT
45358365 ATGGAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (19 bp):
TTATAAAATAAAATTAATT
Found at i:45358665 original size:34 final size:34
Alignment explanation
Indices: 45358588--45358670 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 34
45358578 ATTTAAACGC
*
45358588 AATGTGTGCGTATATGATATAGATATGTTTCTAT
1 AATGTGTGCGTATATAATATAGATATGTTTCTAT
* * * *
45358622 CATTTGTGCGTATATAATGTAGGTATGTTTCTAT
1 AATGTGTGCGTATATAATATAGATATGTTTCTAT
* *
45358656 AATGCGTGCGAATAT
1 AATGTGTGCGTATAT
45358671 TAATTCTCTA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (34 bp):
AATGTGTGCGTATATAATATAGATATGTTTCTAT
Found at i:45359241 original size:48 final size:48
Alignment explanation
Indices: 45359170--45359404 Score: 470
Period size: 48 Copynumber: 4.9 Consensus size: 48
45359160 GCACCACTGC
45359170 TGTTTCAAGAATTAAGAGAATATGAGTTCAAAGGCTTATTATCAGTGG
1 TGTTTCAAGAATTAAGAGAATATGAGTTCAAAGGCTTATTATCAGTGG
45359218 TGTTTCAAGAATTAAGAGAATATGAGTTCAAAGGCTTATTATCAGTGG
1 TGTTTCAAGAATTAAGAGAATATGAGTTCAAAGGCTTATTATCAGTGG
45359266 TGTTTCAAGAATTAAGAGAATATGAGTTCAAAGGCTTATTATCAGTGG
1 TGTTTCAAGAATTAAGAGAATATGAGTTCAAAGGCTTATTATCAGTGG
45359314 TGTTTCAAGAATTAAGAGAATATGAGTTCAAAGGCTTATTATCAGTGG
1 TGTTTCAAGAATTAAGAGAATATGAGTTCAAAGGCTTATTATCAGTGG
45359362 TGTTTCAAGAATTAAGAGAATATGAGTTCAAAGGCTTATTATC
1 TGTTTCAAGAATTAAGAGAATATGAGTTCAAAGGCTTATTATC
45359405 CTCCGGTTTA
Statistics
Matches: 187, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 187 1.00
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.34
Consensus pattern (48 bp):
TGTTTCAAGAATTAAGAGAATATGAGTTCAAAGGCTTATTATCAGTGG
Found at i:45359542 original size:186 final size:186
Alignment explanation
Indices: 45359314--45359653 Score: 680
Period size: 186 Copynumber: 1.8 Consensus size: 186
45359304 TTATCAGTGG
45359314 TGTTTCAAGAATTAAGAGAATATGAGTTCAAAGGCTTATTATCAGTGGTGTTTCAAGAATTAAGA
1 TGTTTCAAGAATTAAGAGAATATGAGTTCAAAGGCTTATTATCAGTGGTGTTTCAAGAATTAAGA
45359379 GAATATGAGTTCAAAGGCTTATTATCCTCCGGTTTAAGGATTTGGGGTGTGGGTAATAATAAGAA
66 GAATATGAGTTCAAAGGCTTATTATCCTCCGGTTTAAGGATTTGGGGTGTGGGTAATAATAAGAA
45359444 ATGTATAAAAGCGAATGGACTAAAATAAGTAGTGAGAATCATTTTGGCACCACTGC
131 ATGTATAAAAGCGAATGGACTAAAATAAGTAGTGAGAATCATTTTGGCACCACTGC
45359500 TGTTTCAAGAATTAAGAGAATATGAGTTCAAAGGCTTATTATCAGTGGTGTTTCAAGAATTAAGA
1 TGTTTCAAGAATTAAGAGAATATGAGTTCAAAGGCTTATTATCAGTGGTGTTTCAAGAATTAAGA
45359565 GAATATGAGTTCAAAGGCTTATTATCCTCCGGTTTAAGGATTTGGGGTGTGGGTAATAATAAGAA
66 GAATATGAGTTCAAAGGCTTATTATCCTCCGGTTTAAGGATTTGGGGTGTGGGTAATAATAAGAA
45359630 ATGTATAAAAGCGAATGGACTAAA
131 ATGTATAAAAGCGAATGGACTAAA
45359654 TTTGAGAAAT
Statistics
Matches: 154, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
186 154 1.00
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (186 bp):
TGTTTCAAGAATTAAGAGAATATGAGTTCAAAGGCTTATTATCAGTGGTGTTTCAAGAATTAAGA
GAATATGAGTTCAAAGGCTTATTATCCTCCGGTTTAAGGATTTGGGGTGTGGGTAATAATAAGAA
ATGTATAAAAGCGAATGGACTAAAATAAGTAGTGAGAATCATTTTGGCACCACTGC
Found at i:45363247 original size:30 final size:31
Alignment explanation
Indices: 45363168--45363247 Score: 76
Period size: 30 Copynumber: 2.6 Consensus size: 31
45363158 CTAGAGAGTC
****
45363168 TAATTAAAATTTTCAAAATTTTTATATGGAT
1 TAATTAAAATTTTCAAAAAAAATATATGGAT
*
45363199 TAATTAGAA-TTTCTAAAAAAAATA-ATGG-T
1 TAATTAAAATTTTC-AAAAAAAATATATGGAT
45363228 GTAATTAAAATTTTCAAAAA
1 -TAATTAAAATTTTCAAAAA
45363248 TTTTGAGAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
29 1 0.03
30 21 0.52
31 18 0.45
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (31 bp):
TAATTAAAATTTTCAAAAAAAATATATGGAT
Found at i:45374214 original size:33 final size:33
Alignment explanation
Indices: 45374152--45374214 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
45374142 TTCAAAATTT
* * * *
45374152 TAAAAATTTAATTAAACCCCTTAATTTTTTTTC
1 TAAAAATTTAATAAAACCCATAAAGTTTTTTTC
*
45374185 TAAAATTTTAATAAAACCCATAAAGTTTTT
1 TAAAAATTTAATAAAACCCATAAAGTTTTT
45374215 GACAATTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.41, C:0.13, G:0.02, T:0.44
Consensus pattern (33 bp):
TAAAAATTTAATAAAACCCATAAAGTTTTTTTC
Found at i:45374244 original size:30 final size:29
Alignment explanation
Indices: 45374187--45374255 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
45374177 TTTTTTTCTA
45374187 AAATTTTAATAAAACCCATAAAGTTTTTG
1 AAATTTTAATAAAACCCATAAAGTTTTTG
* * *
45374216 ACAATTTTAATTAAACTCTTGAAA-TTTTTG
1 A-AATTTTAATAAAACCCAT-AAAGTTTTTG
45374246 AAGATTTTAA
1 AA-ATTTTAA
45374256 GTAGAACTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 2 0.06
30 29 0.85
31 3 0.09
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (29 bp):
AAATTTTAATAAAACCCATAAAGTTTTTG
Found at i:45377356 original size:2 final size:2
Alignment explanation
Indices: 45377351--45377382 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
45377341 TATTTTAAAC
45377351 TA TA 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
45377383 ACACTAACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45380305 original size:40 final size:40
Alignment explanation
Indices: 45380261--45380431 Score: 97
Period size: 40 Copynumber: 4.3 Consensus size: 40
45380251 AATATACATG
45380261 AAATATTTTAAAATTTTAAATATAATAATAAATTATATTT
1 AAATATTTTAAAATTTTAAATATAATAATAAATTATATTT
* * * * *
45380301 AAATAATTTAATATAATTATACATAAAAT-ATATATT-T-TTT
1 AAAT-ATTT--TAAAATTTTAAATATAATAATAAATTATATTT
* * * * * * *
45380341 AGATCCTTTTTATAAATTATT---TGTAA-ATTTAA-TATACATG
1 AAAT--ATTTTA-AAATT-TTAAATATAATAATAAATTATA-TTT
45380381 AAATATTTTAAAATTTTAAATATAATAATAAATTATATTT
1 AAATATTTTAAAATTTTAAATATAATAATAAATTATATTT
*
45380421 AAATAATTTAA
1 AAATATTTTAA
45380432 TATAATGATA
Statistics
Matches: 91, Mismatches: 25, Indels: 30
0.62 0.17 0.21
Matches are distributed among these distances:
36 2 0.02
37 6 0.07
38 11 0.12
39 6 0.07
40 33 0.36
41 13 0.14
42 6 0.07
43 14 0.15
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (40 bp):
AAATATTTTAAAATTTTAAATATAATAATAAATTATATTT
Found at i:45380314 original size:31 final size:31
Alignment explanation
Indices: 45380279--45380437 Score: 84
Period size: 31 Copynumber: 5.3 Consensus size: 31
45380269 TAAAATTTTA
45380279 AATATAATAATAAATTATATTTAAATAATTT
1 AATATAATAATAAATTATATTTAAATAATTT
* * * * * * **
45380310 AATATAATTATACATAAAATATATATTTTTT
1 AATATAATAATAAATTATATTTAAATAATTT
* ** *
45380341 AGATCCTTTTTATAAATTAT-TTGT--A-AATTT
1 A-AT-ATAATAATAAATTATATT-TAAATAATTT
* *
45380371 AATATACAT--GAAA-TAT-TTTAAA-ATTTT
1 AATATA-ATAATAAATTATATTTAAATAATTT
45380398 AAATATAATAATAAATTATATTTAAATAATTT
1 -AATATAATAATAAATTATATTTAAATAATTT
45380430 AATATAAT
1 AATATAAT
45380438 GATATAGAAA
Statistics
Matches: 92, Mismatches: 24, Indels: 24
0.66 0.17 0.17
Matches are distributed among these distances:
25 1 0.01
26 5 0.05
27 10 0.11
28 7 0.08
29 6 0.07
30 7 0.08
31 39 0.42
32 7 0.08
33 10 0.11
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.47
Consensus pattern (31 bp):
AATATAATAATAAATTATATTTAAATAATTT
Found at i:45380346 original size:120 final size:120
Alignment explanation
Indices: 45380175--45380452 Score: 529
Period size: 120 Copynumber: 2.3 Consensus size: 120
45380165 AAATTAGATA
45380175 ATATTTAAATAATTTAATATAATTATACATAAAATATATATTTTTTAGATCCTTTTTATAAATTA
1 ATATTTAAATAATTTAATATAATTATACATAAAATATATATTTTTTAGATCCTTTTTATAAATTA
45380240 TTTGTAAATTTAATATACATGAAATATTTTAAAATTTTAAATATAATAATAAATT
66 TTTGTAAATTTAATATACATGAAATATTTTAAAATTTTAAATATAATAATAAATT
45380295 ATATTTAAATAATTTAATATAATTATACATAAAATATATATTTTTTAGATCCTTTTTATAAATTA
1 ATATTTAAATAATTTAATATAATTATACATAAAATATATATTTTTTAGATCCTTTTTATAAATTA
45380360 TTTGTAAATTTAATATACATGAAATATTTTAAAATTTTAAATATAATAATAAATT
66 TTTGTAAATTTAATATACATGAAATATTTTAAAATTTTAAATATAATAATAAATT
* * *
45380415 ATATTTAAATAATTTAATATAATGATATAGAAAATATA
1 ATATTTAAATAATTTAATATAATTATACATAAAATATA
45380453 AATTAATTTA
Statistics
Matches: 155, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 155 1.00
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (120 bp):
ATATTTAAATAATTTAATATAATTATACATAAAATATATATTTTTTAGATCCTTTTTATAAATTA
TTTGTAAATTTAATATACATGAAATATTTTAAAATTTTAAATATAATAATAAATT
Found at i:45384519 original size:74 final size:74
Alignment explanation
Indices: 45384398--45384547 Score: 300
Period size: 74 Copynumber: 2.0 Consensus size: 74
45384388 TAAGTGTCTA
45384398 GGTTCGAGTCCTATTGTGTGCGTTTACATGTGTGAGTTCTTAATCTAGATTTTATCTCACCATGT
1 GGTTCGAGTCCTATTGTGTGCGTTTACATGTGTGAGTTCTTAATCTAGATTTTATCTCACCATGT
45384463 GTAATTGTC
66 GTAATTGTC
45384472 GGTTCGAGTCCTATTGTGTGCGTTTACATGTGTGAGTTCTTAATCTAGATTTTATCTCACCATGT
1 GGTTCGAGTCCTATTGTGTGCGTTTACATGTGTGAGTTCTTAATCTAGATTTTATCTCACCATGT
45384537 GTAATTGTC
66 GTAATTGTC
45384546 GG
1 GG
45384548 ATGCAAACTA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 76 1.00
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.43
Consensus pattern (74 bp):
GGTTCGAGTCCTATTGTGTGCGTTTACATGTGTGAGTTCTTAATCTAGATTTTATCTCACCATGT
GTAATTGTC
Found at i:45386650 original size:41 final size:43
Alignment explanation
Indices: 45386603--45386698 Score: 120
Period size: 47 Copynumber: 2.1 Consensus size: 43
45386593 TACTTAAATG
** *
45386603 AAAAAAAAGAGTATGATTTATATGCAACTTTGTAATTAACCCT
1 AAAAAAACCAGTATGATTTATATGAAACTTTGTAATTAACCCT
*
45386646 AAAAAATAATACCATTATGATTTATATGAAACTTTGTAATTAACCCT
1 --AAAA-AA-ACCAGTATGATTTATATGAAACTTTGTAATTAACCCT
45386693 AAAAAA
1 AAAAAA
45386699 TAATACCATT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
44 2 0.04
45 8 0.18
46 2 0.04
47 33 0.73
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.32
Consensus pattern (43 bp):
AAAAAAACCAGTATGATTTATATGAAACTTTGTAATTAACCCT
Found at i:45386666 original size:47 final size:47
Alignment explanation
Indices: 45386614--45386708 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
45386604 AAAAAAAGAG
*
45386614 TATGATTTATATGCAACTTTGTAATTAACCCTAAAAAATAATACCAT
1 TATGATTTATATGAAACTTTGTAATTAACCCTAAAAAATAATACCAT
45386661 TATGATTTATATGAAACTTTGTAATTAACCCTAAAAAATAATACCAT
1 TATGATTTATATGAAACTTTGTAATTAACCCTAAAAAATAATACCAT
45386708 T
1 T
45386709 GTCATCATGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (47 bp):
TATGATTTATATGAAACTTTGTAATTAACCCTAAAAAATAATACCAT
Found at i:45386934 original size:16 final size:17
Alignment explanation
Indices: 45386915--45386946 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
45386905 TATGTAATTT
45386915 TAATTTTA-ATATTTAA
1 TAATTTTATATATTTAA
45386931 TAATTTTATATATTTA
1 TAATTTTATATATTTA
45386947 TCATTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TAATTTTATATATTTAA
Found at i:45387024 original size:95 final size:96
Alignment explanation
Indices: 45386902--45387092 Score: 375
Period size: 95 Copynumber: 2.0 Consensus size: 96
45386892 TAAAAAAAGT
45386902 ATTTATGTAATTTTAATTTTAATATTTAATAATTTTATATATTTATCATTTATTAAAATTTCAAA
1 ATTTATGTAATTTTAATTTTAATATTTAATAATTTTATATATTTATCATTTATTAAAATTTCAAA
45386967 TATATGCAACTTAATATATTTTTTAAAGAGA
66 TATATGCAACTTAATATATTTTTTAAAGAGA
45386998 ATTTATGTAA-TTTAATTTTAATATTTAATAATTTTATATATTTATCATTTATTAAAATTTCAAA
1 ATTTATGTAATTTTAATTTTAATATTTAATAATTTTATATATTTATCATTTATTAAAATTTCAAA
45387062 TATATGCAACTTAATATATTTTTTAAAGAGA
66 TATATGCAACTTAATATATTTTTTAAAGAGA
45387093 GTAACCCATT
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
95 85 0.89
96 10 0.11
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (96 bp):
ATTTATGTAATTTTAATTTTAATATTTAATAATTTTATATATTTATCATTTATTAAAATTTCAAA
TATATGCAACTTAATATATTTTTTAAAGAGA
Found at i:45387031 original size:16 final size:17
Alignment explanation
Indices: 45387010--45387041 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
45387000 TTATGTAATT
45387010 TAATTTTA-ATATTTAA
1 TAATTTTATATATTTAA
45387026 TAATTTTATATATTTA
1 TAATTTTATATATTTA
45387042 TCATTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TAATTTTATATATTTAA
Found at i:45392341 original size:23 final size:23
Alignment explanation
Indices: 45392302--45392345 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
45392292 TGGTTATGTC
45392302 AATACAGTATTTCCAGAAAACAT
1 AATACAGTATTTCCAGAAAACAT
*
45392325 AATACAG-ATTATTCAGAAAAC
1 AATACAGTATT-TCCAGAAAAC
45392346 TGCCCACCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.50, C:0.16, G:0.09, T:0.25
Consensus pattern (23 bp):
AATACAGTATTTCCAGAAAACAT
Found at i:45394510 original size:35 final size:36
Alignment explanation
Indices: 45394456--45394539 Score: 116
Period size: 35 Copynumber: 2.3 Consensus size: 36
45394446 AAATATCTTG
* *
45394456 AAATAATAATAGGAAGATTAAATTTTAAATATA-CAA
1 AAAT-ATAATAAGAAGATTAAATTTTAAATATATAAA
*
45394492 AAATATAATAAGAGGATTAAATTTTAAATATATAAA
1 AAATATAATAAGAAGATTAAATTTTAAATATATAAA
45394528 AAATATAGATAA
1 AAATATA-ATAA
45394540 TTGAAAAAGA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
35 26 0.60
36 13 0.30
37 4 0.09
ACGTcount: A:0.60, C:0.01, G:0.08, T:0.31
Consensus pattern (36 bp):
AAATATAATAAGAAGATTAAATTTTAAATATATAAA
Found at i:45395702 original size:129 final size:129
Alignment explanation
Indices: 45395475--45395727 Score: 416
Period size: 129 Copynumber: 2.0 Consensus size: 129
45395465 GGTATACCAA
* * * **
45395475 TCAATTCCTGATCCAACCAATCTGACTAGACGGTTGAATATGGTTCCAACAACATTGCTCGAACT
1 TCAATTCATGATCCAACCAATCTGACTAAACGATCCAATATGGTTCCAACAACATTGCTCGAACT
* *
45395540 ATGACTTAGGTTTTAAATTAGTATCCAAGCTTCAAAACATTCTATTTGAATCTTCAAATACCGG
66 ATGACTTAGGTTTTAAATTAGTATCCAAACTTCAAAACATTCTATTTGAATATTCAAATACCGG
* *
45395604 TCAATTCATGATCCAACGAATCTGACTAAACGATCCAATATGGTTTCAACAACATTGCTCGAACT
1 TCAATTCATGATCCAACCAATCTGACTAAACGATCCAATATGGTTCCAACAACATTGCTCGAACT
*
45395669 ATGACTTAGGTTTTAGATTAGTATCCAAACTTCAAAACATTCTATTTGAATATTCAAAT
66 ATGACTTAGGTTTTAAATTAGTATCCAAACTTCAAAACATTCTATTTGAATATTCAAAT
45395728 GATCAATATA
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 114 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (129 bp):
TCAATTCATGATCCAACCAATCTGACTAAACGATCCAATATGGTTCCAACAACATTGCTCGAACT
ATGACTTAGGTTTTAAATTAGTATCCAAACTTCAAAACATTCTATTTGAATATTCAAATACCGG
Found at i:45412560 original size:4 final size:4
Alignment explanation
Indices: 45412553--45412591 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
45412543 AAATCATATA
45412553 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
45412592 CAACTTACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:45412802 original size:3 final size:3
Alignment explanation
Indices: 45412794--45412819 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
45412784 CTTGTTACGA
45412794 TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TC
45412820 TTCTTCTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (3 bp):
TCC
Found at i:45413696 original size:4 final size:4
Alignment explanation
Indices: 45413687--45413719 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
45413677 CTTCAATGGG
45413687 AATT AATT AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT AATT AATT A
45413720 GCTATTACCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:45420096 original size:2 final size:2
Alignment explanation
Indices: 45420089--45420118 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
45420079 TTTTATGTAG
45420089 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
45420119 CATGTGTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45421348 original size:2 final size:2
Alignment explanation
Indices: 45421341--45421375 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
45421331 AATTAATTAA
45421341 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
45421376 CATGTTTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:45422480 original size:17 final size:17
Alignment explanation
Indices: 45422458--45422490 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
45422448 TATTTGTATT
45422458 TGTATTGTACTTATAAA
1 TGTATTGTACTTATAAA
*
45422475 TGTATTGTATTTATAA
1 TGTATTGTACTTATAA
45422491 TAGTGAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (17 bp):
TGTATTGTACTTATAAA
Found at i:45429967 original size:60 final size:60
Alignment explanation
Indices: 45429900--45430048 Score: 217
Period size: 60 Copynumber: 2.5 Consensus size: 60
45429890 ATTTAAAATT
* * *
45429900 TGGTCACTCAACTATTAGTAAGTTTACAATTTGGTCACTGAATTTCAAAAAGTTACAAGC
1 TGGTCACTCAACTATTAGTAAGTTTACAATTCGGTCACTAAATTTCAAAAAGCTACAAGC
* * *
45429960 TGGTCACTCAACTATTAGTAAGTTTATAATTCGGTCACTAAATTTCAGAAAGCTACAAGT
1 TGGTCACTCAACTATTAGTAAGTTTACAATTCGGTCACTAAATTTCAAAAAGCTACAAGC
* * *
45430020 TGGTCACTAAATTATTAGCAAGTTTACAA
1 TGGTCACTCAACTATTAGTAAGTTTACAA
45430049 GTTTACACTC
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 79 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.34
Consensus pattern (60 bp):
TGGTCACTCAACTATTAGTAAGTTTACAATTCGGTCACTAAATTTCAAAAAGCTACAAGC
Found at i:45430027 original size:29 final size:29
Alignment explanation
Indices: 45429923--45430051 Score: 100
Period size: 29 Copynumber: 4.3 Consensus size: 29
45429913 ATTAGTAAGT
* * *
45429923 TTACAATTTGGTCACTGAATTTCAAAAAG
1 TTACAAGTTGGTCACTAAATTTCAGAAAG
* * *
45429952 TTACAAGCTGGTCACTCAACTATT-AGTAAG
1 TTACAAGTTGGTCACT-AAAT-TTCAGAAAG
*
45429982 TTTATAA-TTCGGTCACTAAATTTCAGAAAG
1 -TTACAAGTT-GGTCACTAAATTTCAGAAAG
* * *
45430012 CTACAAGTTGGTCACTAAATTATTAGCAAG
1 TTACAAGTTGGTCACTAAATT-TCAGAAAG
45430042 TTTACAAGTT
1 -TTACAAGTT
45430052 TACACTCTGG
Statistics
Matches: 77, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
29 32 0.42
30 23 0.30
31 22 0.29
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.34
Consensus pattern (29 bp):
TTACAAGTTGGTCACTAAATTTCAGAAAG
Found at i:45430051 original size:31 final size:31
Alignment explanation
Indices: 45429899--45430051 Score: 127
Period size: 31 Copynumber: 5.1 Consensus size: 31
45429889 AATTTAAAAT
* * * *
45429899 TTGGTCACTCAACTATTAGTAAGTTTACAAT
1 TTGGTCACTAAATTATTAGAAAGTTTACAAG
* * *
45429930 TTGGTCACTGAATT-TCAAAAAG-TTACAAG
1 TTGGTCACTAAATTATTAGAAAGTTTACAAG
* * * * *
45429959 CTGGTCACTCAACTATTAGTAAGTTTATAA-
1 TTGGTCACTAAATTATTAGAAAGTTTACAAG
* *
45429989 TTCGGTCACTAAATT-TCAGAAAG-CTACAAG
1 TT-GGTCACTAAATTATTAGAAAGTTTACAAG
*
45430019 TTGGTCACTAAATTATTAGCAAGTTTACAAG
1 TTGGTCACTAAATTATTAGAAAGTTTACAAG
45430050 TT
1 TT
45430052 TACACTCTGG
Statistics
Matches: 93, Mismatches: 23, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
29 33 0.35
30 25 0.27
31 35 0.38
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (31 bp):
TTGGTCACTAAATTATTAGAAAGTTTACAAG
Found at i:45430281 original size:6 final size:7
Alignment explanation
Indices: 45430269--45430300 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
45430259 TTTTTTAAGT
*
45430269 TTTTTAA
1 TTTTAAA
45430276 TTTTAAA
1 TTTTAAA
45430283 TTTTAAA
1 TTTTAAA
45430290 TTTTAAA
1 TTTTAAA
45430297 TTTT
1 TTTT
45430301 TAAGAAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (7 bp):
TTTTAAA
Found at i:45430302 original size:15 final size:15
Alignment explanation
Indices: 45430261--45430303 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
45430251 TTTAATTATT
* *
45430261 TTTTAAGTTTTTTAA
1 TTTTAAATTTTTAAA
45430276 TTTTAAA-TTTTAAA
1 TTTTAAATTTTTAAA
45430290 TTTTAAATTTTTAA
1 TTTTAAATTTTTAA
45430304 GAAGTAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (15 bp):
TTTTAAATTTTTAAA
Found at i:45430369 original size:96 final size:97
Alignment explanation
Indices: 45430256--45430449 Score: 381
Period size: 96 Copynumber: 2.0 Consensus size: 97
45430246 CTGAATTTAA
45430256 TTATTTTTTAAGTTTTTTAATTTTAAATTTTAAATTTTAAATTTTTAAGAAGTAAAACTAAATTG
1 TTATTTTTTAAGTTTTTTAATTTTAAATTTTAAATTTTAAATTTTTAAGAAGTAAAACTAAATTG
45430321 ACAAAATATGTAAAGCTAAAGGCTAAATTTGT
66 ACAAAATATGTAAAGCTAAAGGCTAAATTTGT
45430353 TTATTTTTTAA-TTTTTTAATTTTAAATTTTAAATTTTAAATTTTTAAGAAGTAAAACTAAATTG
1 TTATTTTTTAAGTTTTTTAATTTTAAATTTTAAATTTTAAATTTTTAAGAAGTAAAACTAAATTG
45430417 ACAAAATATGTAAAGCTAAAGGCTAAATTTGT
66 ACAAAATATGTAAAGCTAAAGGCTAAATTTGT
45430449 T
1 T
45430450 GAACTTTTTT
Statistics
Matches: 97, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
96 86 0.89
97 11 0.11
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (97 bp):
TTATTTTTTAAGTTTTTTAATTTTAAATTTTAAATTTTAAATTTTTAAGAAGTAAAACTAAATTG
ACAAAATATGTAAAGCTAAAGGCTAAATTTGT
Found at i:45430399 original size:8 final size:7
Alignment explanation
Indices: 45430358--45430396 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
45430348 TTTGTTTATT
*
45430358 TTTTAAT
1 TTTTAAA
*
45430365 TTTTTAA
1 TTTTAAA
45430372 TTTTAAA
1 TTTTAAA
45430379 TTTTAAA
1 TTTTAAA
45430386 TTTTAAA
1 TTTTAAA
45430393 TTTT
1 TTTT
45430397 TAAGAAGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTTAAA
Found at i:45430475 original size:96 final size:94
Alignment explanation
Indices: 45430279--45430476 Score: 290
Period size: 96 Copynumber: 2.1 Consensus size: 94
45430269 TTTTTAATTT
45430279 TAAATTTTAAATTTTAAATTTTTAAGAAGTAAAACTAAATTGACAAAATATGTAAAGCTAAAGGC
1 TAAATTTTAAATTTTAAATTTTTAAGAAGTAAAACTAAATTGACAAAATATGTAAAGCTAAAGGC
* * ***
45430344 TAAATTTGTTTATTTTTTAATTTTTTAATTT
66 TAAATTTGTTAATTTTTTAA--TATTAAGAC
45430375 TAAATTTTAAATTTTAAATTTTTAAGAAGTAAAACTAAATTGACAAAATATGTAAAGCTAAAGGC
1 TAAATTTTAAATTTTAAATTTTTAAGAAGTAAAACTAAATTGACAAAATATGTAAAGCTAAAGGC
*
45430440 TAAATTTGTTGAACTTTTTTAGA-ATTAGGAC
66 TAAATTTGTT-AA-TTTTTTA-ATATTAAGAC
45430471 TAAATT
1 TAAATT
45430477 GATAGGATCT
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
96 84 0.90
97 1 0.01
98 7 0.08
99 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.42
Consensus pattern (94 bp):
TAAATTTTAAATTTTAAATTTTTAAGAAGTAAAACTAAATTGACAAAATATGTAAAGCTAAAGGC
TAAATTTGTTAATTTTTTAATATTAAGAC
Found at i:45445728 original size:58 final size:58
Alignment explanation
Indices: 45445661--45445778 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 58
45445651 AAACTTGCCA
45445661 TAATATGACCTCAAACATAAACACATATTTATATGTATATAACCAACCAATATTAACT
1 TAATATGACCTCAAACATAAACACATATTTATATGTATATAACCAACCAATATTAACT
*
45445719 TAATATGACCTCAAACATAAACACATGTTTATATGTATATAACCAACCAATATTAACT
1 TAATATGACCTCAAACATAAACACATATTTATATGTATATAACCAACCAATATTAACT
45445777 TA
1 TA
45445779 TAATCTTATT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (58 bp):
TAATATGACCTCAAACATAAACACATATTTATATGTATATAACCAACCAATATTAACT
Found at i:45446455 original size:37 final size:40
Alignment explanation
Indices: 45446412--45446511 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 40
45446402 ACGTAATAAT
* * *
45446412 TTGACACCTAGTGTCTCATCG-GCTAAACTG-A-AGTAAA
1 TTGACACCCAGTGTCTCATCGAACTAAACCGAAGAGTAAA
* * *
45446449 TTGACACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAA
1 TTGACACCCAGTGTCTCATCGAACTAAACCGAAG-AGTAAA
45446490 TTGACACCCAGTGTCTCATCGA
1 TTGACACCCAGTGTCTCATCGA
45446512 CTCGAAGTTG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
37 19 0.37
38 5 0.10
39 1 0.02
41 27 0.52
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (40 bp):
TTGACACCCAGTGTCTCATCGAACTAAACCGAAGAGTAAA
Found at i:45447409 original size:22 final size:21
Alignment explanation
Indices: 45447384--45447439 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 21
45447374 TCTTTCTCTT
45447384 TTTATTTCATTTACTTATTATA
1 TTTA-TTCATTTACTTATTATA
45447406 TTTA--C-TTTA-TTATTATA
1 TTTATTCATTTACTTATTATA
45447423 TTATATAT-ATTTACTTA
1 TT-TAT-TCATTTACTTA
45447440 ATTCTTAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
17 10 0.36
18 6 0.21
19 1 0.04
21 4 0.14
22 7 0.25
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATTCATTTACTTATTATA
Found at i:45452628 original size:28 final size:29
Alignment explanation
Indices: 45452575--45452630 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
45452565 CGCGAAAAAT
45452575 GGCCCATTCCGGTAAATAATTAAAAAACC
1 GGCCCATTCCGGTAAATAATTAAAAAACC
*
45452604 GGCCCATTTCGGTAAAT-ATTGAAAAAA
1 GGCCCATTCCGGTAAATAATT-AAAAAA
45452631 AAGGCTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (29 bp):
GGCCCATTCCGGTAAATAATTAAAAAACC
Found at i:45455547 original size:35 final size:35
Alignment explanation
Indices: 45455476--45455549 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
45455466 AGAGATAACT
* * *
45455476 ACAAGCCTCGAACATAGACATTAAAACATACATCA
1 ACAAACCTCGAACATAAACATTAAAACAAACATCA
* *
45455511 ACAAACCTCGAACATAAATCA-TAAAATAAACCTCA
1 ACAAACCTCGAACATAAA-CATTAAAACAAACATCA
45455546 ACAA
1 ACAA
45455550 TACTATAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
35 31 0.94
36 2 0.06
ACGTcount: A:0.53, C:0.26, G:0.05, T:0.16
Consensus pattern (35 bp):
ACAAACCTCGAACATAAACATTAAAACAAACATCA
Found at i:45468309 original size:34 final size:34
Alignment explanation
Indices: 45468235--45468311 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
45468225 ATTGAATTAG
* * * *
45468235 TATAAGCATAATAATTGTTATCGTATTGATCTAC
1 TATAAGTATAATAATTGCTATCATAGTGATCTAC
*
45468269 TATAAGTATATTAATTGCTATCATAGTGATCT-C
1 TATAAGTATAATAATTGCTATCATAGTGATCTAC
45468302 TTATAAGTAT
1 -TATAAGTAT
45468312 GCCACATTAC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 1 0.03
34 36 0.97
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (34 bp):
TATAAGTATAATAATTGCTATCATAGTGATCTAC
Found at i:45469725 original size:12 final size:12
Alignment explanation
Indices: 45469708--45469732 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45469698 TCGTTTAGGT
45469708 GAGAATCTAAAA
1 GAGAATCTAAAA
45469720 GAGAATCTAAAA
1 GAGAATCTAAAA
45469732 G
1 G
45469733 GAGATTAGTT
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:0.56, C:0.08, G:0.20, T:0.16
Consensus pattern (12 bp):
GAGAATCTAAAA
Found at i:45471358 original size:148 final size:147
Alignment explanation
Indices: 45471103--45471398 Score: 499
Period size: 148 Copynumber: 2.0 Consensus size: 147
45471093 TTAATTATCC
*
45471103 ATTTTAATAATTTCATACTTTAAATAGTTAACACTGTTAATTATTTCAATTAAATTCTTGATGTT
1 ATTTTAATAATTTCATACTTTAAATAGTTAACACTGTTAATTATTCCAATTAAATTCTTGATGTT
*
45471168 GATTTTTTTTAAATACTCAGTCCCATATGTCATGATGAGAAAAAATGTTCATAAAAATAACTACA
66 AATTTTTTTTAAATACTCAGTCCCATATGTCATGATGAGAAAAAATGTTC-TAAAAATAACTACA
45471233 TTAACAATTTAATCGTTA
130 TTAACAATTTAATCGTTA
*
45471251 ATTTTAATAATTTCATACTTTAAATAGTTAACACTGTTAATTATTCCGATTAAATTCTTGATG-T
1 ATTTTAATAATTTCATACTTTAAATAGTTAACACTGTTAATTATTCCAATTAAATTCTTGATGTT
*
45471315 AATTTTTTTTAAAAAATACTCAGT-CCA-ATGTCATGATGAGAAAAAATGTTCTTAAAATAACTA
66 AATTTTTTTT---AAATACTCAGTCCCATATGTCATGATGAGAAAAAATGTTCTAAAAATAACTA
45471378 CATTAACAATTTAATCGTTA
128 CATTAACAATTTAATCGTTA
45471398 A
1 A
45471399 CTATTTTGAT
Statistics
Matches: 141, Mismatches: 4, Indels: 7
0.93 0.03 0.05
Matches are distributed among these distances:
147 42 0.30
148 85 0.60
149 3 0.02
150 11 0.08
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.41
Consensus pattern (147 bp):
ATTTTAATAATTTCATACTTTAAATAGTTAACACTGTTAATTATTCCAATTAAATTCTTGATGTT
AATTTTTTTTAAATACTCAGTCCCATATGTCATGATGAGAAAAAATGTTCTAAAAATAACTACAT
TAACAATTTAATCGTTA
Found at i:45487877 original size:9 final size:9
Alignment explanation
Indices: 45487855--45487904 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 9
45487845 CTATCATTAT
45487855 AAAAATTC-
1 AAAAATTCA
45487863 -AAAATTCA
1 AAAAATTCA
*
45487871 AAAAATTATA
1 AAAAATT-CA
45487881 AAAAATTCAA
1 AAAAATTC-A
*
45487891 AAAAATGCA
1 AAAAATTCA
45487900 AAAAA
1 AAAAA
45487905 CTAGCATGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
7 7 0.20
9 12 0.34
10 16 0.46
ACGTcount: A:0.70, C:0.08, G:0.02, T:0.20
Consensus pattern (9 bp):
AAAAATTCA
Found at i:45487885 original size:10 final size:10
Alignment explanation
Indices: 45487863--45487904 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
45487853 ATAAAAATTC
45487863 AAAATTC-AA
1 AAAATTCAAA
45487872 AAAATT-ATAA
1 AAAATTCA-AA
45487882 AAAATTCAAA
1 AAAATTCAAA
*
45487892 AAAATGCAAA
1 AAAATTCAAA
45487902 AAA
1 AAA
45487905 CTAGCATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 6 0.21
10 22 0.76
11 1 0.03
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.19
Consensus pattern (10 bp):
AAAATTCAAA
Found at i:45487902 original size:19 final size:19
Alignment explanation
Indices: 45487863--45487904 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
45487853 ATAAAAATTC
* *
45487863 AAAATTCAAAAAATTATAA
1 AAAATTCAAAAAAATACAA
*
45487882 AAAATTCAAAAAAATGCAA
1 AAAATTCAAAAAAATACAA
45487901 AAAA
1 AAAA
45487905 CTAGCATGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.19
Consensus pattern (19 bp):
AAAATTCAAAAAAATACAA
Found at i:45491740 original size:29 final size:30
Alignment explanation
Indices: 45491692--45491749 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
45491682 GTGCAATATC
*
45491692 ATACATAAATTTTGATTTTG-TACAATTTT
1 ATACATAAATTTTGAATTTGATACAATTTT
*
45491721 ATACATAAAATTTT-AATTTGATTCAATTT
1 ATACAT-AAATTTTGAATTTGATACAATTT
45491750 CCACAAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (30 bp):
ATACATAAATTTTGAATTTGATACAATTTT
Found at i:45503806 original size:19 final size:19
Alignment explanation
Indices: 45503784--45503832 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
45503774 TTAAACATAT
45503784 TTTCAAACCAATACAAGAC
1 TTTCAAACCAATACAAGAC
45503803 TTTCAAACCAATACAAGAC
1 TTTCAAACCAATACAAGAC
*
45503822 ATTCAAACCAA
1 TTTCAAACCAA
45503833 ACCAAAATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.49, C:0.27, G:0.04, T:0.20
Consensus pattern (19 bp):
TTTCAAACCAATACAAGAC
Found at i:45504720 original size:24 final size:24
Alignment explanation
Indices: 45504671--45504717 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
45504661 AGCTCATGCG
* *
45504671 AGCCAATAACGGGTAGCTCCGAAT
1 AGCCAATAACGGGAAGCTCAGAAT
*
45504695 AGCCATTAACGGGAAGCTTCAGA
1 AGCCAATAACGGGAAGC-TCAGA
45504718 TAGTTGTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.17
Consensus pattern (24 bp):
AGCCAATAACGGGAAGCTCAGAAT
Found at i:45504794 original size:26 final size:27
Alignment explanation
Indices: 45504754--45504804 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
45504744 AGCCATATCG
*
45504754 GGAAGCTCACAAAGAGGC-TTTAATCA
1 GGAAGCTCACAAAGAGCCATTTAATCA
*
45504780 GGAAGCTCACGAAGAGCCATTTAAT
1 GGAAGCTCACAAAGAGCCATTTAAT
45504805 GGAACACTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (27 bp):
GGAAGCTCACAAAGAGCCATTTAATCA
Found at i:45504887 original size:24 final size:26
Alignment explanation
Indices: 45504860--45504912 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 26
45504850 CAATCGGGAT
*
45504860 GCTCCG-AAGAACTAT-TAACAGGAA
1 GCTCCGCAAGAACTATAAAACAGGAA
*
45504884 GCT-CGCAAGAACTATAAAACGGGAA
1 GCTCCGCAAGAACTATAAAACAGGAA
45504909 GCTC
1 GCTC
45504913 GAGAGGGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
23 2 0.08
24 12 0.50
25 10 0.42
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.15
Consensus pattern (26 bp):
GCTCCGCAAGAACTATAAAACAGGAA
Found at i:45504913 original size:25 final size:24
Alignment explanation
Indices: 45504866--45504913 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
45504856 GGATGCTCCG
*
45504866 AAGAACTATTAACAGGAAGCTCGC
1 AAGAACTATAAACAGGAAGCTCGC
*
45504890 AAGAACTATAAAACGGGAAGCTCG
1 AAGAACTAT-AAACAGGAAGCTCG
45504914 AGAGGGCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.15
Consensus pattern (24 bp):
AAGAACTATAAACAGGAAGCTCGC
Found at i:45505271 original size:21 final size:21
Alignment explanation
Indices: 45505245--45505290 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
45505235 TATACGAATG
*
45505245 AATTTA-ACATCAATTTAATAC
1 AATTTATAC-TCAATTCAATAC
*
45505266 AATTTATACTCAATTCAATCC
1 AATTTATACTCAATTCAATAC
45505287 AATT
1 AATT
45505291 CACATCTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.39
Consensus pattern (21 bp):
AATTTATACTCAATTCAATAC
Found at i:45506987 original size:20 final size:20
Alignment explanation
Indices: 45506964--45507020 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
45506954 AAGCCCTTTT
*
45506964 AAAATTTAAAAATTATTAAA
1 AAAATTTAAAAATTATGAAA
**
45506984 AAAATAAAAAAATTTATGAAA
1 AAAATTTAAAAA-TTATGAAA
45507005 AAAA-TTATAAAATTAT
1 AAAATTTA-AAAATTAT
45507021 ACTTTTTAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAATTTAAAAATTATGAAA
Found at i:45506988 original size:12 final size:11
Alignment explanation
Indices: 45506971--45507016 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
45506961 TTTAAAATTT
45506971 AAAAATTATTAA
1 AAAAATTA-TAA
45506983 AAAAA-TA-AA
1 AAAAATTATAA
*
45506992 AAAATTTATGAA
1 AAAAATTAT-AA
45507004 AAAAATTATAA
1 AAAAATTATAA
45507015 AA
1 AA
45507017 TTATACTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
9 6 0.21
10 2 0.07
11 6 0.21
12 15 0.52
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:45507000 original size:21 final size:21
Alignment explanation
Indices: 45506971--45507018 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
45506961 TTTAAAATTT
*
45506971 AAAAA-TTATTAAAAAAATAA
1 AAAAATTTATGAAAAAAATAA
*
45506991 AAAAATTTATGAAAAAAATTA
1 AAAAATTTATGAAAAAAATAA
*
45507012 TAAAATT
1 AAAAATT
45507019 ATACTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAATTTATGAAAAAAATAA
Found at i:45507114 original size:17 final size:18
Alignment explanation
Indices: 45507092--45507127 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
45507082 TATTTTTTAA
45507092 TAAAAAATTTATAA-TTT
1 TAAAAAATTTATAACTTT
*
45507109 TAAAAATTTTATAACTTT
1 TAAAAAATTTATAACTTT
45507127 T
1 T
45507128 TATTATAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAAAAATTTATAACTTT
Found at i:45509196 original size:12 final size:12
Alignment explanation
Indices: 45509179--45509203 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45509169 ATACCTATTC
45509179 TTTTTGATACAA
1 TTTTTGATACAA
45509191 TTTTTGATACAA
1 TTTTTGATACAA
45509203 T
1 T
45509204 GCCTAGAATT
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:0.08, G:0.08, T:0.52
Consensus pattern (12 bp):
TTTTTGATACAA
Found at i:45510397 original size:29 final size:29
Alignment explanation
Indices: 45510329--45510399 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
45510319 AAAGTAGAGA
* *
45510329 GACTAAATTCCTAGAAATACACATACAGG
1 GACTAAATTCTTAGAAATACAAATACAGG
* *
45510358 GACTAAATTCTTAGAAATACAAATATATG
1 GACTAAATTCTTAGAAATACAAATACAGG
45510387 GACTAAATTCTTA
1 GACTAAATTCTTA
45510400 ATTTTCAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.28
Consensus pattern (29 bp):
GACTAAATTCTTAGAAATACAAATACAGG
Found at i:45527053 original size:18 final size:18
Alignment explanation
Indices: 45527032--45527090 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 18
45527022 AATAAACACC
45527032 AAAAATTTATTTTAAAA-T
1 AAAAA-TTATTTTAAAATT
45527050 AAAAATTATTTTAAAATT
1 AAAAATTATTTTAAAATT
* **
45527068 AAAAA-AATTAAAAAATT
1 AAAAATTATTTTAAAATT
45527085 AAAAAT
1 AAAAAT
45527091 ATATACTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 25 0.69
18 11 0.31
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAATTATTTTAAAATT
Found at i:45536084 original size:42 final size:42
Alignment explanation
Indices: 45536012--45536092 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
45536002 GCTGTGGCCG
*
45536012 CTCCCCTTTAACGGCTACCTTTTCTATCAAATGGGTCCTTCT
1 CTCCCCTTCAACGGCTACCTTTTCTATCAAATGGGTCCTTCT
* * *
45536054 CTCCTCTTCAACGGCTAGCTTTTCTTTCAAATGGGTCCT
1 CTCCCCTTCAACGGCTACCTTTTCTATCAAATGGGTCCT
45536093 ACTATACACA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.16, C:0.32, G:0.14, T:0.38
Consensus pattern (42 bp):
CTCCCCTTCAACGGCTACCTTTTCTATCAAATGGGTCCTTCT
Found at i:45538256 original size:18 final size:19
Alignment explanation
Indices: 45538233--45538270 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
45538223 ATTTAAAAAA
45538233 TATAAAT-TTTGAAATTTT
1 TATAAATATTTGAAATTTT
*
45538251 TATAAATATTTTAAATTTT
1 TATAAATATTTGAAATTTT
45538270 T
1 T
45538271 TTTTGTAATT
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:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
TATAAATATTTGAAATTTT
Found at i:45538670 original size:16 final size:18
Alignment explanation
Indices: 45538639--45538678 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
45538629 CAGATCAATT
45538639 AATAAATTATTTTAAAAA
1 AATAAATTATTTTAAAAA
45538657 AATAAA-TA-TTTAAAAA
1 AATAAATTATTTTAAAAA
*
45538673 ATTAAA
1 AATAAA
45538679 GAAAATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 13 0.62
17 2 0.10
18 6 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AATAAATTATTTTAAAAA
Found at i:45538672 original size:17 final size:18
Alignment explanation
Indices: 45538639--45538673 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
45538629 CAGATCAATT
*
45538639 AATAAATTATTTTAAAAA
1 AATAAATTATTTAAAAAA
45538657 AATAAA-TATTTAAAAAA
1 AATAAATTATTTAAAAAA
45538674 TTAAAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AATAAATTATTTAAAAAA
Found at i:45540522 original size:147 final size:147
Alignment explanation
Indices: 45540255--45540594 Score: 511
Period size: 147 Copynumber: 2.3 Consensus size: 147
45540245 TACAGGTCAA
* * * *
45540255 GAAATGATTCTTACCATGATGTCAATGATCTAAGGTATTGAACGCCCGACCAAGCTAAACATCAA
1 GAAATGATTCTTACTATGATGTCAATGAACTAAGCTATTGAATGCCCGACCAAGCTAAACATCAA
* * * * *
45540320 TATACCATGATCCACTCTATAGGCAGTAAGGACAGCTACAGGTCAAGCTATATAACTAGCTTGAA
66 TATACCATAATCCAATCTATAAGCAGCAAGGACAGCTACAAGTCAAGCTATATAACTAGCTTGAA
45540385 CCTTAGCCAATGCATTT
131 CCTTAGCCAATGCATTT
* * *
45540402 GAAATGAATCTTACTATGATGTCAATGAACTAAGCTATTGAGTGCCCGACTAAGCTAAACATCAA
1 GAAATGATTCTTACTATGATGTCAATGAACTAAGCTATTGAATGCCCGACCAAGCTAAACATCAA
* * * *
45540467 TATACCATAATCCAATCTTTAAGCAGCACGGACAGCTATAAGTCGAGCTATATAACTAGCTTGAA
66 TATACCATAATCCAATCTATAAGCAGCAAGGACAGCTACAAGTCAAGCTATATAACTAGCTTGAA
*
45540532 CCTTATCCAATGCATTT
131 CCTTAGCCAATGCATTT
*
45540549 GAAATCATTCTTACTATGATGTCAAT-AACTAAGCTATTGAATGCCC
1 GAAATGATTCTTACTATGATGTCAATGAACTAAGCTATTGAATGCCC
45540595 AACGCCCCGA
Statistics
Matches: 173, Mismatches: 20, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
146 19 0.11
147 154 0.89
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (147 bp):
GAAATGATTCTTACTATGATGTCAATGAACTAAGCTATTGAATGCCCGACCAAGCTAAACATCAA
TATACCATAATCCAATCTATAAGCAGCAAGGACAGCTACAAGTCAAGCTATATAACTAGCTTGAA
CCTTAGCCAATGCATTT
Found at i:45540781 original size:121 final size:122
Alignment explanation
Indices: 45540519--45540804 Score: 423
Period size: 121 Copynumber: 2.3 Consensus size: 122
45540509 TCGAGCTATA
* * *
45540519 TAACTAGCTTGAACCTTATCCAATGCATTTGAAATCATTCTTACTATGATGTCAATAACTAAGCT
1 TAACTAGCTTGAACCTTAGCCAATGCATTTGAAATGATTCTTACAATGATGTCAATAACTAAGCT
* * *
45540584 ATTGAATGCCCAACGCCCCGACTACACTAAACATTGATATACCATAATCCAATCTTTAAGCTG
66 ATTGAAT------CGCCCCGACTACACTAAACATCGATATACCATAATCCAACCTTTAAGCAG
*
45540647 TAACTAGCTTGAACCTTAGCCAATGCATTTGAAATGATTCTTACAATGATGTCAATGAACTAAGG
1 TAACTAGCTTGAACCTTAGCCAATGCATTTGAAATGATTCTTACAATGATGTCAAT-AACTAAGC
45540712 TATTGAAT-G-CCCGACTACACTAAACATCGATATACCATAATCCAACCTTTAAGCAG
65 TATTGAATCGCCCCGACTACACTAAACATCGATATACCATAATCCAACCTTTAAGCAG
*
45540768 TAATTAGCTTGAACCTTAGCCAATGCATTTGAAATGA
1 TAACTAGCTTGAACCTTAGCCAATGCATTTGAAATGA
45540805 ATGAAAACAA
Statistics
Matches: 149, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
121 80 0.54
122 1 0.01
128 53 0.36
129 15 0.10
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (122 bp):
TAACTAGCTTGAACCTTAGCCAATGCATTTGAAATGATTCTTACAATGATGTCAATAACTAAGCT
ATTGAATCGCCCCGACTACACTAAACATCGATATACCATAATCCAACCTTTAAGCAG
Found at i:45542100 original size:12 final size:12
Alignment explanation
Indices: 45542083--45542111 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
45542073 GGATGAGAGT
45542083 TTAAATTTTATA
1 TTAAATTTTATA
45542095 TTAAATTTTATA
1 TTAAATTTTATA
45542107 TTAAA
1 TTAAA
45542112 ATCTGTTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTAAATTTTATA
Found at i:45543014 original size:62 final size:62
Alignment explanation
Indices: 45542909--45543094 Score: 365
Period size: 62 Copynumber: 3.0 Consensus size: 62
45542899 ACTGCTTCAG
45542909 TAGTCGACCGATTGCCTCTT-CCCCATTACAGCATGCAGATTGCAGACTCTATTAATGTCTT
1 TAGTCGACCGATTGCCTCTTCCCCCATTACAGCATGCAGATTGCAGACTCTATTAATGTCTT
45542970 TAGTCGACCGATTGCCTCTTCCCCCATTACAGCATGCAGATTGCAGACTCTATTAATGTCTT
1 TAGTCGACCGATTGCCTCTTCCCCCATTACAGCATGCAGATTGCAGACTCTATTAATGTCTT
45543032 TAGTCGACCGATTGCCTCTTCCCCCATTACAGCATGCAGATTGCAGACTCTATTAATGTCTT
1 TAGTCGACCGATTGCCTCTTCCCCCATTACAGCATGCAGATTGCAGACTCTATTAATGTCTT
45543094 T
1 T
45543095 TGCACAGTTC
Statistics
Matches: 124, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
61 20 0.16
62 104 0.84
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (62 bp):
TAGTCGACCGATTGCCTCTTCCCCCATTACAGCATGCAGATTGCAGACTCTATTAATGTCTT
Found at i:45546383 original size:82 final size:81
Alignment explanation
Indices: 45546273--45546531 Score: 272
Period size: 81 Copynumber: 3.2 Consensus size: 81
45546263 ATCTCAAAAA
* * * * * * *
45546273 GGATGGTTAT-TCCTCTTTGCATGTTTGTAGATCTGTATATTGTACATTGTTAGAGAAAAGGAGC
1 GGATGGTTATATCCCCTTTGCATGTTTGTATAT-TGTATAATGAATATTGTGAGACAAAAGGAGC
45546337 CCGCGAAGGGTTCTTGC
65 CCGCGAAGGGTTCTTGC
* * * *
45546354 GGATGGTTATATCCCCTTTGCATGTTTGTATATTCGTATAATGGATATTGTGGGATAAAAAGAGC
1 GGATGGTTATATCCCCTTTGCATGTTTGTATATT-GTATAATGAATATTGTGAGACAAAAGGAGC
* * *
45546419 CCGTGAAGGGTTCTCGT
65 CCGCGAAGGGTTCTTGC
* * * *
45546436 GGGTGGTTAGA-CCCCTTTGCACGTTTGTATATTTGTATAATGAATATTGTGAGACAAAGGGAGC
1 GGATGGTTATATCCCCTTTGCATGTTTGTATA-TTGTATAATGAATATTGTGAGACAAAAGGAGC
* * *
45546500 CCACGAGGGGTTCCTGC
65 CCGCGAAGGGTTCTTGC
45546517 -GAGTGGTTATATCCC
1 GGA-TGGTTATATCCC
45546532 TTGACTTATA
Statistics
Matches: 145, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
80 1 0.01
81 73 0.50
82 71 0.49
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (81 bp):
GGATGGTTATATCCCCTTTGCATGTTTGTATATTGTATAATGAATATTGTGAGACAAAAGGAGCC
CGCGAAGGGTTCTTGC
Found at i:45546476 original size:81 final size:82
Alignment explanation
Indices: 45546273--45546512 Score: 250
Period size: 82 Copynumber: 3.0 Consensus size: 82
45546263 ATCTCAAAAA
* * * * * * * * *
45546273 GGATGGTTA-TTCCTCTTTGCATGTTTGTAGATCTGTATATTGTACATTGTTAGAGAAAAGGAGC
1 GGATGGTTAGATCCCCTTTGCATGTTTGTATATTTGTATAATGAATATTGTGAGAGAAAAAGAGC
*
45546337 CCGCGAAGGGTTCTTGC
66 CCGCGAAGGGTTCTCGC
* * * * *
45546354 GGATGGTTATATCCCCTTTGCATGTTTGTATATTCGTATAATGGATATTGTGGGATAAAAAGAGC
1 GGATGGTTAGATCCCCTTTGCATGTTTGTATATTTGTATAATGAATATTGTGAGAGAAAAAGAGC
* *
45546419 CCGTGAAGGGTTCTCGT
66 CCGCGAAGGGTTCTCGC
* * * **
45546436 GGGTGGTTAGA-CCCCTTTGCACGTTTGTATATTTGTATAATGAATATTGTGAGACAAAGGGAGC
1 GGATGGTTAGATCCCCTTTGCATGTTTGTATATTTGTATAATGAATATTGTGAGAGAAAAAGAGC
* *
45546500 CCACGAGGGGTTC
66 CCGCGAAGGGTTC
45546513 CTGCGAGTGG
Statistics
Matches: 131, Mismatches: 27, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
81 65 0.50
82 66 0.50
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.34
Consensus pattern (82 bp):
GGATGGTTAGATCCCCTTTGCATGTTTGTATATTTGTATAATGAATATTGTGAGAGAAAAAGAGC
CCGCGAAGGGTTCTCGC
Found at i:45548764 original size:41 final size:41
Alignment explanation
Indices: 45548702--45548962 Score: 332
Period size: 41 Copynumber: 6.6 Consensus size: 41
45548692 GACTATACGT
*
45548702 CTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGTTATGAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATGAAC
45548743 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATGAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATGAAC
*
45548784 CTAGCAGGCTAAGTGTCGGTGATCTGAATCAGG---T----
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATGAAC
* *
45548818 -T----GGCTAAGTGTCGGTGATCTGAATCAGGCTATGAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATGAAC
* * *
45548854 CTAGCGGGCTAAGTGCCAGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATGAAC
* *
45548895 CTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGCTAT-AAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATGAA-C
45548936 CTAGCAGGCTAAGTGCCGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
45548963 TTAAATTAAG
Statistics
Matches: 195, Mismatches: 11, Indels: 27
0.84 0.05 0.12
Matches are distributed among these distances:
29 27 0.14
32 1 0.01
33 1 0.01
37 1 0.01
38 1 0.01
40 2 0.01
41 157 0.81
42 5 0.03
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATGAAC
Done.