Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 150 of 204
Found at i:45528852 original size:23 final size:23
Alignment explanation
Indices: 45528822--45528867 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
45528812 TCTTTTGACT
45528822 TGCACAGTTTATTAAACTCATCA
1 TGCACAGTTTATTAAACTCATCA
45528845 TGCACAGTTTATTAAACTCATCA
1 TGCACAGTTTATTAAACTCATCA
45528868 GAACAGAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.35
Consensus pattern (23 bp):
TGCACAGTTTATTAAACTCATCA
Found at i:45529702 original size:17 final size:17
Alignment explanation
Indices: 45529675--45529720 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 17
45529665 TTTTATTTGG
45529675 GGGGAAATAAAAAGTTTT
1 GGGGAAAT-AAAAGTTTT
45529693 GGGG-AATAAAAG-TTT
1 GGGGAAATAAAAGTTTT
45529708 GAGGGAAAGTAAA
1 G-GGGAAA-TAAA
45529721 TAGGGAGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.16
16 8 0.32
17 5 0.20
18 8 0.32
ACGTcount: A:0.46, C:0.00, G:0.33, T:0.22
Consensus pattern (17 bp):
GGGGAAATAAAAGTTTT
Found at i:45529840 original size:30 final size:31
Alignment explanation
Indices: 45529801--45529860 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
45529791 GGAGGTGGGA
*
45529801 TGGGAAGAGAATAAAAGTTTTAGGGG-AAAAG
1 TGGGAAGAGAATAAAAATTTT-GGGGTAAAAG
*
45529832 TGGG-AGAGAGTAAAAATTTTGGGGTAAAA
1 TGGGAAGAGAATAAAAATTTTGGGGTAAAA
45529861 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 4 0.15
30 18 0.69
31 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.35, T:0.22
Consensus pattern (31 bp):
TGGGAAGAGAATAAAAATTTTGGGGTAAAAG
Found at i:45530088 original size:9 final size:9
Alignment explanation
Indices: 45530074--45530119 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
45530064 TATAGTTTGA
45530074 TATTCGAAT
1 TATTCGAAT
45530083 TATTCGAAT
1 TATTCGAAT
*
45530092 TATTCGAAA
1 TATTCGAAT
*
45530101 TATTCGAGT
1 TATTCGAAT
45530110 TATTCGAAT
1 TATTCGAAT
45530119 T
1 T
45530120 CGAAAACTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (9 bp):
TATTCGAAT
Found at i:45530190 original size:9 final size:9
Alignment explanation
Indices: 45530173--45530203 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
45530163 TCGAGTTGAT
45530173 TCGAATAAC
1 TCGAATAAC
*
45530182 TCGATTAAC
1 TCGAATAAC
45530191 TCGAATAAC
1 TCGAATAAC
45530200 TCGA
1 TCGA
45530204 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:45540134 original size:3 final size:3
Alignment explanation
Indices: 45540126--45540154 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
45540116 TATATAAAAG
45540126 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
45540155 TGAAATTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:45549028 original size:26 final size:26
Alignment explanation
Indices: 45548989--45549064 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
45548979 TGGTTCACAC
* * **
45548989 ATTGATCTCGCACATTAGGCTTGTGT
1 ATTGAGCTCGCACATTAGGCTCGCAT
* *
45549015 ATTGAGCTCACACATTGGGCTCGCAT
1 ATTGAGCTCGCACATTAGGCTCGCAT
45549041 ATTGAGCTCGCACA-TAGGGCTCGC
1 ATTGAGCTCGCACATTA-GGCTCGC
45549065 GTAGAGAGCT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
25 1 0.02
26 40 0.98
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (26 bp):
ATTGAGCTCGCACATTAGGCTCGCAT
Found at i:45549062 original size:13 final size:13
Alignment explanation
Indices: 45549015--45549064 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
45549005 AGGCTTGTGT
* *
45549015 ATTGAGCTCACAC
1 ATTGGGCTCGCAC
*
45549028 ATTGGGCTCGCAT
1 ATTGGGCTCGCAC
*
45549041 ATTGAGCTCGCAC
1 ATTGGGCTCGCAC
*
45549054 ATAGGGCTCGC
1 ATTGGGCTCGC
45549065 GTAGAGAGCT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.22, C:0.28, G:0.26, T:0.24
Consensus pattern (13 bp):
ATTGGGCTCGCAC
Found at i:45549073 original size:26 final size:26
Alignment explanation
Indices: 45549018--45549078 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
45549008 CTTGTGTATT
* **
45549018 GAGCTCACACATTGGGCTCGCATATT
1 GAGCTCACACATAGGGCTCGCATAGA
* *
45549044 GAGCTCGCACATAGGGCTCGCGTAGA
1 GAGCTCACACATAGGGCTCGCATAGA
45549070 GAGCTCACA
1 GAGCTCACA
45549079 TGACGCTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.20
Consensus pattern (26 bp):
GAGCTCACACATAGGGCTCGCATAGA
Found at i:45552226 original size:37 final size:37
Alignment explanation
Indices: 45552176--45552251 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
45552166 TCAACTTAGT
45552176 TCATTTTCATCATGCTTACAATGCTCTGGAAAAGTAA
1 TCATTTTCATCATGCTTACAATGCTCTGGAAAAGTAA
45552213 TCATTTTCATCATGCTTACAATGCTCTGGAAAAGTAA
1 TCATTTTCATCATGCTTACAATGCTCTGGAAAAGTAA
45552250 TC
1 TC
45552252 CAAGGCAACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.36
Consensus pattern (37 bp):
TCATTTTCATCATGCTTACAATGCTCTGGAAAAGTAA
Found at i:45557999 original size:15 final size:15
Alignment explanation
Indices: 45557979--45558007 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
45557969 ATGCCTCACA
45557979 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
45557994 CACCGTGTTATCAA
1 CACCGTGTTATCAA
45558008 GCAACAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:45559548 original size:16 final size:17
Alignment explanation
Indices: 45559523--45559555 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
45559513 TTCCATGATA
45559523 GATTAAATTG-AATGAG
1 GATTAAATTGAAATGAG
*
45559539 GATTATATTGAAATGAG
1 GATTAAATTGAAATGAG
45559556 TTAAATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.33
Consensus pattern (17 bp):
GATTAAATTGAAATGAG
Found at i:45559867 original size:25 final size:25
Alignment explanation
Indices: 45559822--45559909 Score: 133
Period size: 25 Copynumber: 3.6 Consensus size: 25
45559812 ATCATTAGGG
* *
45559822 TTACCGAT-TTCAGCTCTTATGAGC
1 TTACCGATACTCAGCTCATATGAGC
45559846 TTACCGATACTCAGCTCATATGAGC
1 TTACCGATACTCAGCTCATATGAGC
*
45559871 TTACCGTTACTCAGCTCATATGAGC
1 TTACCGATACTCAGCTCATATGAGC
*
45559896 TTACCGTTACTCAG
1 TTACCGATACTCAG
45559910 TTCGGTGGAG
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
24 8 0.13
25 52 0.87
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (25 bp):
TTACCGATACTCAGCTCATATGAGC
Found at i:45559920 original size:25 final size:25
Alignment explanation
Indices: 45559831--45559928 Score: 117
Period size: 25 Copynumber: 3.9 Consensus size: 25
45559821 GTTACCGATT
* * *
45559831 TCAGCTCTTATGAGCTTACCGATAC
1 TCAGCTCATAGGAGCTTACCGTTAC
*
45559856 TCAGCTCATATGAGCTTACCGTTAC
1 TCAGCTCATAGGAGCTTACCGTTAC
*
45559881 TCAGCTCATATGAGCTTACCGTTAC
1 TCAGCTCATAGGAGCTTACCGTTAC
* *
45559906 TCAGTTCGGT-GGAGCTTACCGTT
1 TCAGCTC-ATAGGAGCTTACCGTT
45559929 TATAGCTTGT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
25 66 0.99
26 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (25 bp):
TCAGCTCATAGGAGCTTACCGTTAC
Found at i:45559921 original size:50 final size:50
Alignment explanation
Indices: 45559831--45559928 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 50
45559821 GTTACCGATT
* *
45559831 TCAGCTCTTATGAGCTTACCGATACTCAGCTCATATGAGCTTACCGTTAC
1 TCAGCTCATATGAGCTTACCGATACTCAGCTCATAGGAGCTTACCGTTAC
* * *
45559881 TCAGCTCATATGAGCTTACCGTTACTCAGTTCGGT-GGAGCTTACCGTT
1 TCAGCTCATATGAGCTTACCGATACTCAGCTC-ATAGGAGCTTACCGTT
45559929 TATAGCTTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 41 0.98
51 1 0.02
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (50 bp):
TCAGCTCATATGAGCTTACCGATACTCAGCTCATAGGAGCTTACCGTTAC
Found at i:45565195 original size:14 final size:14
Alignment explanation
Indices: 45565159--45565195 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
45565149 TGATGTCATT
*
45565159 TTACTATTATATTG
1 TTACTATTTTATTG
45565173 TTACTATTTTATTG
1 TTACTATTTTATTG
*
45565187 TTATTATTT
1 TTACTATTT
45565196 GGATATTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.65
Consensus pattern (14 bp):
TTACTATTTTATTG
Found at i:45566010 original size:13 final size:13
Alignment explanation
Indices: 45565992--45566026 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
45565982 ATTATTTTCT
45565992 ATATTCTTTTAAA
1 ATATTCTTTTAAA
*
45566005 ATATTCTTATAAA
1 ATATTCTTTTAAA
45566018 ATATT-TTTT
1 ATATTCTTTT
45566027 TCCTTTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 3 0.15
13 17 0.85
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (13 bp):
ATATTCTTTTAAA
Found at i:45566167 original size:14 final size:16
Alignment explanation
Indices: 45566135--45566164 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
45566125 ATTTATTCAT
45566135 TTTTCATTATTAAAAA
1 TTTTCATTATTAAAAA
45566151 TTTTC-TTATTAAAA
1 TTTTCATTATTAAAA
45566165 TTTAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTCATTATTAAAAA
Found at i:45570485 original size:16 final size:16
Alignment explanation
Indices: 45570464--45570494 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45570454 CCAATATCCA
*
45570464 ATTATCATATTTACAC
1 ATTATCACATTTACAC
45570480 ATTATCACATTTACA
1 ATTATCACATTTACA
45570495 AAAATATATT
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:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:45571279 original size:12 final size:12
Alignment explanation
Indices: 45571262--45571313 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 12
45571252 CGTGCGTTTC
*
45571262 TTCTTTCTCCCT
1 TTCTTTCTCCTT
45571274 TTCTTTCT--TT
1 TTCTTTCTCCTT
*
45571284 TTCTTTTTCCTT
1 TTCTTTCTCCTT
45571296 TTCTTTCT--TT
1 TTCTTTCTCCTT
45571306 TTCTTTCT
1 TTCTTTCT
45571314 TTCTAATTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
10 18 0.51
12 17 0.49
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
TTCTTTCTCCTT
Found at i:45571288 original size:10 final size:10
Alignment explanation
Indices: 45571273--45571315 Score: 59
Period size: 10 Copynumber: 4.1 Consensus size: 10
45571263 TCTTTCTCCC
45571273 TTTCTTTCTT
1 TTTCTTTCTT
*
45571283 TTTCTTTTTCCT
1 TTTC--TTTCTT
45571295 TTTCTTTCTT
1 TTTCTTTCTT
45571305 TTTCTTTCTT
1 TTTCTTTCTT
45571315 T
1 T
45571316 CTAATTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 20 0.69
12 9 0.31
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:45571289 original size:22 final size:22
Alignment explanation
Indices: 45571262--45571313 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
45571252 CGTGCGTTTC
45571262 TTCTTTCTCCCTTTCTTTCTTT
1 TTCTTTCTCCCTTTCTTTCTTT
* *
45571284 TTCTTTTTCCTTTTCTTTCTTT
1 TTCTTTCTCCCTTTCTTTCTTT
45571306 TTCTTTCT
1 TTCTTTCT
45571314 TTCTAATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (22 bp):
TTCTTTCTCCCTTTCTTTCTTT
Found at i:45573787 original size:21 final size:21
Alignment explanation
Indices: 45573740--45573787 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
45573730 TGTGAACTAC
45573740 ATAAGAAATTGGATGAAGAAA
1 ATAAGAAATTGGATGAAGAAA
* *
45573761 ACAAGAAATTGG-TGGAGTAAA
1 ATAAGAAATTGGATGAAG-AAA
45573782 ATAAGA
1 ATAAGA
45573788 GGTTACAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.54, C:0.02, G:0.25, T:0.19
Consensus pattern (21 bp):
ATAAGAAATTGGATGAAGAAA
Found at i:45576217 original size:130 final size:130
Alignment explanation
Indices: 45575984--45576334 Score: 449
Period size: 130 Copynumber: 2.7 Consensus size: 130
45575974 CAACTTGGGA
* *
45575984 AAGATTGTTCATGATAGTAAATCAATAAACTTAGGCTGTGATCGTAAATCAAC-AATCCTTAATA
1 AAGATTGTTCATGATAGTAAATCAATGAACTTAGGTTGTGATCGTAAATCAACGAA-CCTTAATA
* * * * * * * *
45576048 ACATCAATTGTGATCTTAAATCAGTGAGTTGTTTGAAGTAGCAATAGTAGATCAGCTAACTCAGA
65 ATATCAGTTGTGACCTTAAATCAGTGAGTTATTTAAAGTAACAATAGTAAATCAACTAACTCAGA
45576113 G
130 G
* * *
45576114 AAGATTGTTCATGATAGTAAATTAATGAATTTAGGTTGTGATCATAAATCAACGAACCTTAATAA
1 AAGATTGTTCATGATAGTAAATCAATGAACTTAGGTTGTGATCGTAAATCAACGAACCTTAATAA
*
45576179 TATCAGTTGTGACCTTAAATCAGCT-A-TCTATTTAAAGTAACAATAGTAAATCAACTAACTTAG
66 TATCAGTTGTGACCTTAAATCAG-TGAGT-TATTTAAAGTAACAATAGTAAATCAACTAACTCAG
45576242 AG
129 AG
* * * * *
45576244 AAGATTTTTCATGATAGTAAATCAATGAACTTAGTTTGTGATCGTAAATTAGA-GAGCATTAATA
1 AAGATTGTTCATGATAGTAAATCAATGAACTTAGGTTGTGATCGTAAATCA-ACGAACCTTAATA
* *
45576308 ATATCAGTTGTGACTTTAAATTAGTGA
65 ATATCAGTTGTGACCTTAAATCAGTGA
45576335 TTTGTTTTAC
Statistics
Matches: 192, Mismatches: 24, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
129 2 0.01
130 186 0.97
131 4 0.02
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (130 bp):
AAGATTGTTCATGATAGTAAATCAATGAACTTAGGTTGTGATCGTAAATCAACGAACCTTAATAA
TATCAGTTGTGACCTTAAATCAGTGAGTTATTTAAAGTAACAATAGTAAATCAACTAACTCAGAG
Found at i:45578854 original size:29 final size:29
Alignment explanation
Indices: 45578816--45578871 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
45578806 ACTTTGGTGC
45578816 CCTCTATTCTAACATAGCACTCCGGTGTT
1 CCTCTATTCTAACATAGCACTCCGGTGTT
* ** *
45578845 CCTCTGTTCTATTATTGCACTCCGGTG
1 CCTCTATTCTAACATAGCACTCCGGTG
45578872 CATTACTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.16, C:0.30, G:0.16, T:0.38
Consensus pattern (29 bp):
CCTCTATTCTAACATAGCACTCCGGTGTT
Found at i:45584438 original size:22 final size:23
Alignment explanation
Indices: 45584410--45584452 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
45584400 AAAAGCTATA
45584410 AAAATTTTAAAAATAA-AAAATG
1 AAAATTTTAAAAATAATAAAATG
*
45584432 AAAATTTTGAAAATAATAAAA
1 AAAATTTTAAAAATAATAAAA
45584453 GATTTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (23 bp):
AAAATTTTAAAAATAATAAAATG
Found at i:45595121 original size:19 final size:21
Alignment explanation
Indices: 45595093--45595142 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
45595083 GGTCTTTTAC
*
45595093 TAAAATAATA-TAAAAGAA-A
1 TAAAAAAATATTAAAAGAATA
*
45595112 TAAAAAAATATTAAAATAATA
1 TAAAAAAATATTAAAAGAATA
45595133 TATAAAAAAT
1 TA-AAAAAAT
45595143 TATTTATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 9 0.35
20 7 0.27
21 3 0.12
22 7 0.27
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (21 bp):
TAAAAAAATATTAAAAGAATA
Found at i:45595233 original size:27 final size:27
Alignment explanation
Indices: 45595197--45595248 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
45595187 ATGGAATGGC
*
45595197 GGCACCGGTGGTGCCATTCTCATTGAT
1 GGCACCGGTGGTGCCATTCCCATTGAT
* *
45595224 GGCATCGGTGGTGCTATTCCCATTG
1 GGCACCGGTGGTGCCATTCCCATTG
45595249 GCGACATAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.13, C:0.25, G:0.31, T:0.31
Consensus pattern (27 bp):
GGCACCGGTGGTGCCATTCCCATTGAT
Found at i:45602835 original size:19 final size:21
Alignment explanation
Indices: 45602794--45602842 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
45602784 GATAAATAAT
45602794 TTTTTTATATATTATTTTAGTA
1 TTTTTT-TATATTATTTTAGTA
*
45602816 TTTTTTTAT-TTCTTTT-GTA
1 TTTTTTTATATTATTTTAGTA
*
45602835 TTATTTTA
1 TTTTTTTA
45602843 GTAAAAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.40
20 6 0.24
21 3 0.12
22 6 0.24
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (21 bp):
TTTTTTTATATTATTTTAGTA
Found at i:45615913 original size:23 final size:23
Alignment explanation
Indices: 45615880--45615940 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
45615870 CACTGATACA
* *
45615880 TAGCTGAAGCTACCACTGATATG
1 TAGCCGAAGCTACCACTGAAATG
* *
45615903 TATCCGTAGCTACCACTGAAATG
1 TAGCCGAAGCTACCACTGAAATG
45615926 TAGCCGAAGCTACCA
1 TAGCCGAAGCTACCA
45615941 ATAATTAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (23 bp):
TAGCCGAAGCTACCACTGAAATG
Found at i:45617171 original size:13 final size:15
Alignment explanation
Indices: 45617153--45617184 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
45617143 AAATTTTCAC
45617153 AAAATCAT-T-CCAT
1 AAAATCATATACCAT
45617166 AAAATCATATACCAT
1 AAAATCATATACCAT
45617181 AAAA
1 AAAA
45617185 ATATAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 1 0.06
15 8 0.47
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAATCATATACCAT
Found at i:45619585 original size:26 final size:26
Alignment explanation
Indices: 45619549--45619600 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
45619539 ACTTGATGTG
*
45619549 TGTACGCTAAAGAGTGGTTAATAGTA
1 TGTACGCTAAAGAGCGGTTAATAGTA
45619575 TGTACGCTAAAGAGCGGTTAATAGTA
1 TGTACGCTAAAGAGCGGTTAATAGTA
45619601 CTTGTACTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.29
Consensus pattern (26 bp):
TGTACGCTAAAGAGCGGTTAATAGTA
Found at i:45629738 original size:78 final size:78
Alignment explanation
Indices: 45629636--45629783 Score: 181
Period size: 78 Copynumber: 1.9 Consensus size: 78
45629626 TTAACAACAG
* ** * * *
45629636 AAATCGAATAAATTTTGTTGAACGACAATAA-AAGAATCCTTAAACAGAAATATTCAATTGATTT
1 AAATCGAACAAATCCTGTTAAACGACAAGAATAA-AATCCTGAAACAGAAATATTCAATTGATTT
45629700 CTGTTTGAAACAAA
65 CTGTTTGAAACAAA
* * * * *
45629714 AAATCGAACAAATCCTGTTAAACGACAGGAATAAAATCCTGAAATAGAATTGTTCAATTGATTTT
1 AAATCGAACAAATCCTGTTAAACGACAAGAATAAAATCCTGAAACAGAAATATTCAATTGATTTC
45629779 TGTTT
66 TGTTT
45629784 ACAAACATAA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
78 56 0.97
79 2 0.03
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (78 bp):
AAATCGAACAAATCCTGTTAAACGACAAGAATAAAATCCTGAAACAGAAATATTCAATTGATTTC
TGTTTGAAACAAA
Found at i:45635551 original size:35 final size:35
Alignment explanation
Indices: 45635505--45635575 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
45635495 GACAAATGAG
45635505 AAAGTTTGTGCAATATTTACCTCTTCTAAACTCCT
1 AAAGTTTGTGCAATATTTACCTCTTCTAAACTCCT
45635540 AAAGTTTGTGCAATATTTACCTCTTCTAAACTCCT
1 AAAGTTTGTGCAATATTTACCTCTTCTAAACTCCT
45635575 A
1 A
45635576 TAAAATGTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (35 bp):
AAAGTTTGTGCAATATTTACCTCTTCTAAACTCCT
Found at i:45643591 original size:5 final size:5
Alignment explanation
Indices: 45643581--45643605 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
45643571 ATATTGAAGA
45643581 GAAAG GAAAG GAAAG GAAAG GAAAG
1 GAAAG GAAAG GAAAG GAAAG GAAAG
45643606 TGTTATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (5 bp):
GAAAG
Found at i:45644949 original size:57 final size:56
Alignment explanation
Indices: 45644843--45644989 Score: 188
Period size: 57 Copynumber: 2.5 Consensus size: 56
45644833 ATTGACGGTA
*
45644843 AAAAGGATCTAGCCCGGACGGGTGATCCTATCTTGATATAGCCCTCCCGAAGAATATGTGTG
1 AAAATGATCTAGCCCGGACGGGTG-----ATCTTGATATAGCCCTCCCGAAGAATATGTG-G
45644905 AAAAAT-ATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGG
1 -AAAATGATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGG
* *
45644961 AAAATGGATTTAGCCCGGACGGGTAATCT
1 AAAAT-GATCTAGCCCGGACGGGTGATCT
45644990 GAATTAGGGT
Statistics
Matches: 79, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
55 5 0.06
56 1 0.01
57 51 0.65
62 18 0.23
63 4 0.05
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (56 bp):
AAAATGATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGG
Found at i:45646647 original size:9 final size:9
Alignment explanation
Indices: 45646633--45646697 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
45646623 TTTCTTTCTC
45646633 TCTTTTTTT
1 TCTTTTTTT
45646642 TCTTTTTTT
1 TCTTTTTTT
*
45646651 TCTTTTCTT
1 TCTTTTTTT
45646660 TCTTTCATTTT
1 TCTTT--TTTT
* * *
45646671 CCCTTCTTT
1 TCTTTTTTT
45646680 TCTTTTCTTT
1 TCTTTT-TTT
45646690 TCTGTTTT
1 TCT-TTTT
45646698 CTCAATCGTT
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
9 28 0.64
10 7 0.16
11 9 0.20
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.77
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:45646656 original size:5 final size:5
Alignment explanation
Indices: 45646623--45646692 Score: 65
Period size: 5 Copynumber: 14.0 Consensus size: 5
45646613 TTTTACGTTA
*
45646623 TTTCT TTCTCT CTTTTT TTTCT TTT-T TTTCT TTTC- TTTC- TTTCAT
1 TTTCT TT-TCT -TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTC-T
* *
45646668 TTTCC CTTCT TTTCT TTTCT TTTCT
1 TTTCT TTTCT TTTCT TTTCT TTTCT
45646693 GTTTTCTCAA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
4 12 0.22
5 31 0.57
6 9 0.17
7 2 0.04
ACGTcount: A:0.01, C:0.23, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTCT
Found at i:45648166 original size:2 final size:2
Alignment explanation
Indices: 45648159--45648195 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
45648149 AATATAAGTT
*
45648159 AC AC AC AC AC AC AC AC GC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
45648196 GAGTTATAAA
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:0.49, C:0.49, G:0.03, T:0.00
Consensus pattern (2 bp):
AC
Found at i:45649420 original size:23 final size:23
Alignment explanation
Indices: 45649390--45649446 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
45649380 AACCTATCTT
45649390 AATAAACATACACTACAAAATAA
1 AATAAACATACACTACAAAATAA
*
45649413 AATAAACATATACTACAAAATAA
1 AATAAACATACACTACAAAATAA
*
45649436 TATAAACATAC
1 AATAAACATAC
45649447 TTACACTACA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.63, C:0.16, G:0.00, T:0.21
Consensus pattern (23 bp):
AATAAACATACACTACAAAATAA
Found at i:45650742 original size:19 final size:19
Alignment explanation
Indices: 45650706--45650744 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
45650696 AAAATATATA
*
45650706 ATAAACAATATGTTAATTT
1 ATAAACAATATGTGAATTT
45650725 ATAAACAA-ATTGTGAATTT
1 ATAAACAATA-TGTGAATTT
45650744 A
1 A
45650745 AAAAAACCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (19 bp):
ATAAACAATATGTGAATTT
Found at i:45652655 original size:16 final size:16
Alignment explanation
Indices: 45652630--45652678 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
45652620 TCTTCTTTCC
45652630 TTCCTC-TTTTCATTT
1 TTCCTCTTTTTCATTT
* *
45652645 TTCTTTCTTTTTCCTTT
1 TTC-CTCTTTTTCATTT
45652662 TTCCTCTTTTTCATTT
1 TTCCTCTTTTTCATTT
45652678 T
1 T
45652679 ATTCTTCTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 3 0.11
16 14 0.50
17 11 0.39
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.71
Consensus pattern (16 bp):
TTCCTCTTTTTCATTT
Found at i:45653996 original size:46 final size:43
Alignment explanation
Indices: 45653889--45654168 Score: 268
Period size: 46 Copynumber: 6.6 Consensus size: 43
45653879 TACGTATGAT
*
45653889 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA-GCTA
**
45653931 CCACTTATCACTTCCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 -CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-A-GCT-A
45653978 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--TAG---
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTA
*
45654014 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT--AGCTA
* *
45654059 GCACTTATCACTTTGTCTCTTGAACAGATAA--GT-G-TAG---
1 -CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTA
*
45654096 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT--AGCTA
* *
45654141 CCACTTATCACTTTATCTCTTGATCAGA
1 -CACTTATCACTTTGTCACTTGATCAGA
45654169 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 14, Indels: 45
0.77 0.05 0.17
Matches are distributed among these distances:
36 56 0.28
38 5 0.03
39 1 0.01
40 5 0.03
41 1 0.01
42 6 0.03
43 11 0.06
44 8 0.04
45 20 0.10
46 85 0.43
47 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (43 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTA
Found at i:45654019 original size:36 final size:36
Alignment explanation
Indices: 45653978--45654132 Score: 166
Period size: 36 Copynumber: 4.0 Consensus size: 36
45653968 CTAAGGCTAA
45653978 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
45654014 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAG
1 CACTTATCACTTTGTCACTTGATCAGAT-A----AG-T--A--TAG
* * *
45654060 CACTTATCACTTTGTCTCTTGAACAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
45654096 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
45654132 C
1 C
45654133 TAAAGCTACC
Statistics
Matches: 101, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
36 64 0.63
37 1 0.01
40 1 0.01
41 4 0.04
42 1 0.01
44 1 0.01
45 1 0.01
46 28 0.28
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:45654040 original size:82 final size:82
Alignment explanation
Indices: 45653932--45654168 Score: 393
Period size: 82 Copynumber: 2.9 Consensus size: 82
45653922 GCTAGGCTAC
** * *
45653932 CACTTATCACTTCCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCTCT
45653997 TGATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
*
45654014 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAGCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCTCT
* *
45654079 TGAACAGATAAGTGTAG
66 TGATCAGATAAGTATAG
* *
45654096 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCTCT
45654161 TGATCAGA
66 TGATCAGA
45654169 AGTACTCAAA
Statistics
Matches: 145, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 145 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.35
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCTCT
TGATCAGATAAGTATAG
Found at i:45657404 original size:22 final size:22
Alignment explanation
Indices: 45657378--45657422 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
45657368 ATTATATGTA
45657378 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATATAATTTAATT
* *
45657400 TTAATTTATATCTAATTTAATT
1 TTAATTCATATATAATTTAATT
45657422 T
1 T
45657423 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTCATATATAATTTAATT
Found at i:45666578 original size:11 final size:10
Alignment explanation
Indices: 45666536--45666578 Score: 59
Period size: 10 Copynumber: 4.1 Consensus size: 10
45666526 TAAAGCAAAT
45666536 AAAAGAAAGA
1 AAAAGAAAGA
45666546 AAAAGAAAGA
1 AAAAGAAAGA
*
45666556 AACAGAGAAGA
1 AAAAGA-AAGA
45666567 AAAAGAACAGA
1 AAAAGAA-AGA
45666578 A
1 A
45666579 GCTATTTCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 16 0.55
11 13 0.45
ACGTcount: A:0.74, C:0.05, G:0.21, T:0.00
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:45670885 original size:23 final size:23
Alignment explanation
Indices: 45670843--45670886 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
45670833 GTAAAACTGA
*
45670843 ATAATTGTCACATGTTTATTACC
1 ATAATTGTCACATGTATATTACC
45670866 ATAATTG-CACATGTAATATTA
1 ATAATTGTCACATGT-ATATTA
45670887 TTAACCTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (23 bp):
ATAATTGTCACATGTATATTACC
Found at i:45671762 original size:17 final size:18
Alignment explanation
Indices: 45671740--45671775 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
45671730 CGAATATACT
*
45671740 ATCATAAATGAAT-CAAA
1 ATCATAAATCAATCCAAA
45671757 ATCATAAATCAATCCAAA
1 ATCATAAATCAATCCAAA
45671775 A
1 A
45671776 AGAATATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.58, C:0.17, G:0.03, T:0.22
Consensus pattern (18 bp):
ATCATAAATCAATCCAAA
Found at i:45673440 original size:34 final size:35
Alignment explanation
Indices: 45673395--45673462 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 35
45673385 CCAGTAAAAT
*
45673395 ATTTTCCGTAAAATGATTT-CGGGAAAATGTTTTA
1 ATTTTCCGTAAAATGATTTACGGGAAAATATTTTA
* *
45673429 ATTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 ATTTTCCGTAAAATGATTTACGGGAAAATATTTT
45673463 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 18 0.60
35 12 0.40
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (35 bp):
ATTTTCCGTAAAATGATTTACGGGAAAATATTTTA
Found at i:45673466 original size:14 final size:15
Alignment explanation
Indices: 45673429--45673466 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
45673419 AAATGTTTTA
*
45673429 ATTTTCTGTAAAATG
1 ATTTTCTGGAAAATG
*
45673444 ATTTACTGGAAAAT-
1 ATTTTCTGGAAAATG
45673458 ATTTTCTGG
1 ATTTTCTGG
45673467 TGTTTGATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.45
Consensus pattern (15 bp):
ATTTTCTGGAAAATG
Found at i:45675959 original size:17 final size:17
Alignment explanation
Indices: 45675937--45675970 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
45675927 TTTTTCAAAT
*
45675937 ATATTTTTGAGTAAAAA
1 ATATTTTTGAGCAAAAA
45675954 ATATTTTTGAGCAAAAA
1 ATATTTTTGAGCAAAAA
45675971 TTAAAAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (17 bp):
ATATTTTTGAGCAAAAA
Found at i:45676600 original size:19 final size:19
Alignment explanation
Indices: 45676576--45676619 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
45676566 TAATTCTGAA
*
45676576 AAAAATATTTAAAAAA-TTT
1 AAAAATA-TAAAAAAACTTT
45676595 AAAAATATAAAAAAACTTT
1 AAAAATATAAAAAAACTTT
45676614 AAAAAT
1 AAAAAT
45676620 TCTGAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAAATATAAAAAAACTTT
Found at i:45677906 original size:13 final size:13
Alignment explanation
Indices: 45677888--45677918 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
45677878 CCAACCCAAA
45677888 CACATCAATATGG
1 CACATCAATATGG
45677901 CACATCAATATGG
1 CACATCAATATGG
45677914 CACAT
1 CACAT
45677919 TGTGCCTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.23
Consensus pattern (13 bp):
CACATCAATATGG
Found at i:45678010 original size:21 final size:21
Alignment explanation
Indices: 45677952--45678038 Score: 104
Period size: 21 Copynumber: 4.1 Consensus size: 21
45677942 TCTTATCAGT
45677952 ATACGACACAT-AAGTGCCTG
1 ATACGACACATAAAGTGCCTG
* ** *
45677972 AAACGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTG
*
45677993 ATACGACACATAAAGTGCTTGAG
1 ATACGACACATAAAGTGCCT--G
45678016 ATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
45678037 AT
1 AT
45678039 CAGCAAAGCC
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
20 9 0.16
21 26 0.47
23 20 0.36
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:45678034 original size:44 final size:41
Alignment explanation
Indices: 45677952--45678038 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 41
45677942 TCTTATCAGT
* *
45677952 ATACGACACATAAGTGCCTGAAACGACACACGAGGTGCCTG
1 ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
* *
45677993 ATACGACACATAAAGTGCTTGAGATACGACACATAAAGTGCCTG
1 ATACGACACAT-AAGTGCCTGA-A-ACGACACACAAAGTGCCTG
45678037 AT
1 AT
45678039 CAGCAAAGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
41 11 0.28
42 9 0.23
43 1 0.03
44 18 0.46
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:45678364 original size:16 final size:17
Alignment explanation
Indices: 45678343--45678374 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
45678333 TAATAATAAT
45678343 ACTTACCTTA-TATTTC
1 ACTTACCTTATTATTTC
45678359 ACTTACCTTATTATTT
1 ACTTACCTTATTATTT
45678375 GCTTACCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (17 bp):
ACTTACCTTATTATTTC
Found at i:45679088 original size:3 final size:3
Alignment explanation
Indices: 45679080--45679113 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
45679070 ATGTATTAGT
45679080 TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
45679114 TTTAATTCAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:45679282 original size:30 final size:27
Alignment explanation
Indices: 45679246--45679310 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 27
45679236 TTTCCTATAA
*
45679246 TATAATATCTTAACTTTAATTAATATAATT
1 TATAATATCTTAA--TTAAATAATAT-ATT
* *
45679276 TATAATATTTTAATTAAATAATATTTT
1 TATAATATCTTAATTAAATAATATATT
45679303 TATAATAT
1 TATAATAT
45679311 AAATCAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.31
28 10 0.31
30 12 0.38
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (27 bp):
TATAATATCTTAATTAAATAATATATT
Found at i:45679312 original size:16 final size:17
Alignment explanation
Indices: 45679276--45679312 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
45679266 TAATATAATT
45679276 TATAATATTTTAATTAA
1 TATAATATTTTAATTAA
*
45679293 -ATAATATTTTTA-TAA
1 TATAATATTTTAATTAA
45679308 TATAA
1 TATAA
45679313 ATCAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAATATTTTAATTAA
Found at i:45679851 original size:67 final size:67
Alignment explanation
Indices: 45679769--45679898 Score: 224
Period size: 67 Copynumber: 1.9 Consensus size: 67
45679759 AGTACCATTA
*
45679769 AAAAAGTTAACGGGATGATGTGAAATTTAATATGTGGAACATTTTTAATGAGATATAATCTATAC
1 AAAAAGTTAACGGGATAATGTGAAATTTAATATGTGGAACATTTTTAATGAGATATAATCTATAC
45679834 TG
66 TG
* * *
45679836 AAAAAGTTAACGGGATAATGTGGAATTTCATATGTGGAACATTTTTAATGAGATGTAATCTAT
1 AAAAAGTTAACGGGATAATGTGAAATTTAATATGTGGAACATTTTTAATGAGATATAATCTAT
45679899 TACTTAGGTA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (67 bp):
AAAAAGTTAACGGGATAATGTGAAATTTAATATGTGGAACATTTTTAATGAGATATAATCTATAC
TG
Found at i:45687558 original size:43 final size:43
Alignment explanation
Indices: 45687504--45687786 Score: 284
Period size: 43 Copynumber: 6.5 Consensus size: 43
45687494 AGAGTGACAG
* * * * *
45687504 TTTATCTGCAAATATGCTGTGCATCCATAGCCCAGTGACAATT
1 TTTATCTGCAAATATGTTGTGCAACCACAACCTAGTGACAATT
* *
45687547 TTTAGCTGCAAATATGTTGTGCAACCACAACCTAGTGAAAATT
1 TTTATCTGCAAATATGTTGTGCAACCACAACCTAGTGACAATT
* *
45687590 TTTATTTGCAAATATGTTGTGCAACCACAACCTAATGACAATTTTTT
1 TTTATCTGCAAATATGTTGTGCAACCACAACCTAGTGACAA----TT
* * * * * *
45687637 TTTTTTTGAAAATATGTTGTGCATCCACAACCTAGTGGC-A-G
1 TTTATCTGCAAATATGTTGTGCAACCACAACCTAGTGACAATT
* * * * *
45687678 TTTATCTGTAAATATGTTGTGCATCCACAACCCAGTTACAGTT
1 TTTATCTGCAAATATGTTGTGCAACCACAACCTAGTGACAATT
* * *
45687721 TTTATCTGCAAATATGTTGTACATCCACAACCTAATGGA-AATT
1 TTTATCTGCAAATATGTTGTGCAACCACAACCTAGT-GACAATT
*
45687764 TTTATTTGCAAATATGTTGTGCA
1 TTTATCTGCAAATATGTTGTGCA
45687787 TTTGATTTGC
Statistics
Matches: 200, Mismatches: 33, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
41 33 0.17
43 129 0.64
44 1 0.00
46 1 0.00
47 36 0.18
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (43 bp):
TTTATCTGCAAATATGTTGTGCAACCACAACCTAGTGACAATT
Found at i:45697688 original size:28 final size:28
Alignment explanation
Indices: 45697637--45697690 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
45697627 ACAAAGTGCA
* *
45697637 AATAACGATAAGCACCGAAGTGCAAAAT
1 AATAACGATAAGCACCAAACTGCAAAAT
* *
45697665 AATATCGATAAGCATCAAACTGCAAA
1 AATAACGATAAGCACCAAACTGCAAA
45697691 TTTTTACAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.50, C:0.19, G:0.15, T:0.17
Consensus pattern (28 bp):
AATAACGATAAGCACCAAACTGCAAAAT
Found at i:45698461 original size:23 final size:23
Alignment explanation
Indices: 45698432--45698510 Score: 131
Period size: 23 Copynumber: 3.4 Consensus size: 23
45698422 ATCCAAATAG
* *
45698432 AGCCTTTGTGGTGTATTATGATT
1 AGCCTTTGTGGCGTATTCTGATT
*
45698455 AGACTTTGTGGCGTATTCTGATT
1 AGCCTTTGTGGCGTATTCTGATT
45698478 AGCCTTTGTGGCGTATTCTGATT
1 AGCCTTTGTGGCGTATTCTGATT
45698501 AGCCTTTGTG
1 AGCCTTTGTG
45698511 TTAGCCTTTG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.15, C:0.14, G:0.27, T:0.44
Consensus pattern (23 bp):
AGCCTTTGTGGCGTATTCTGATT
Found at i:45698529 original size:35 final size:35
Alignment explanation
Indices: 45698476--45698545 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
45698466 CGTATTCTGA
* *
45698476 TTAGCCTTTGTGGCGTATTCTGATTAGCCTTTGTG
1 TTAGCCTTTGTAGCGTATTATGATTAGCCTTTGTG
*
45698511 TTAGCCTTTGTAGTGTATTATGATTAGCCTTTGTG
1 TTAGCCTTTGTAGCGTATTATGATTAGCCTTTGTG
45698546 GTGTATTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.14, C:0.14, G:0.24, T:0.47
Consensus pattern (35 bp):
TTAGCCTTTGTAGCGTATTATGATTAGCCTTTGTG
Found at i:45698552 original size:58 final size:58
Alignment explanation
Indices: 45698453--45698568 Score: 169
Period size: 58 Copynumber: 2.0 Consensus size: 58
45698443 TGTATTATGA
* *
45698453 TTAGACTTTGTGGCGTATTCTGATTAGCCTTTGTGGCGTATTCTGATTAGCCTTTGTG
1 TTAGACTTTGTAGCGTATTATGATTAGCCTTTGTGGCGTATTCTGATTAGCCTTTGTG
* * * * *
45698511 TTAGCCTTTGTAGTGTATTATGATTAGCCTTTGTGGTGTATTTTGATTGGCCTTTGTG
1 TTAGACTTTGTAGCGTATTATGATTAGCCTTTGTGGCGTATTCTGATTAGCCTTTGTG
45698569 ACGTATTCGA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.14, C:0.13, G:0.26, T:0.47
Consensus pattern (58 bp):
TTAGACTTTGTAGCGTATTATGATTAGCCTTTGTGGCGTATTCTGATTAGCCTTTGTG
Found at i:45698568 original size:23 final size:23
Alignment explanation
Indices: 45698511--45698568 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
45698501 AGCCTTTGTG
*
45698511 TTAGCCTTTGTAGTGTATTATGA
1 TTAGCCTTTGTGGTGTATTATGA
*
45698534 TTAGCCTTTGTGGTGTATTTTGA
1 TTAGCCTTTGTGGTGTATTATGA
*
45698557 TTGGCCTTTGTG
1 TTAGCCTTTGTG
45698569 ACGTATTCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.14, C:0.10, G:0.26, T:0.50
Consensus pattern (23 bp):
TTAGCCTTTGTGGTGTATTATGA
Found at i:45698574 original size:23 final size:23
Alignment explanation
Indices: 45698511--45698575 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
45698501 AGCCTTTGTG
*
45698511 TTAGCCTTTGT-AGTGTATTATGA
1 TTAGCCTTTGTGA-CGTATTATGA
** *
45698534 TTAGCCTTTGTGGTGTATTTTGA
1 TTAGCCTTTGTGACGTATTATGA
*
45698557 TTGGCCTTTGTGACGTATT
1 TTAGCCTTTGTGACGTATT
45698576 CGACAAAGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.15, C:0.11, G:0.25, T:0.49
Consensus pattern (23 bp):
TTAGCCTTTGTGACGTATTATGA
Found at i:45702199 original size:17 final size:17
Alignment explanation
Indices: 45702172--45702213 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
45702162 ATATAAATCA
**
45702172 TATAAAA-ATATTGAAT
1 TATAAAATATATAAAAT
45702188 TATAAAATATATAAAAT
1 TATAAAATATATAAAAT
*
45702205 GATAAAATA
1 TATAAAATA
45702214 ATTAGTTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (17 bp):
TATAAAATATATAAAAT
Found at i:45714110 original size:34 final size:35
Alignment explanation
Indices: 45714054--45714120 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
45714044 CAAACACCAG
* *
45714054 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
45714089 AAAACATTTTTCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
45714121 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:45714112 original size:14 final size:14
Alignment explanation
Indices: 45714089--45714128 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
45714079 ACAGAAAAGT
*
45714089 AAAACATTTTTCAG
1 AAAACATTTTACAG
* *
45714103 AAATCATTTTACGG
1 AAAACATTTTACAG
45714117 AAAACATTTTAC
1 AAAACATTTTAC
45714129 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:45722598 original size:29 final size:30
Alignment explanation
Indices: 45722539--45722596 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
45722529 TCCGAGCCTT
*
45722539 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
45722569 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
45722597 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:45722826 original size:13 final size:13
Alignment explanation
Indices: 45722808--45722839 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
45722798 TTTCCAGCAA
45722808 TTATGAATTTATT
1 TTATGAATTTATT
45722821 TTATGAATTTATT
1 TTATGAATTTATT
*
45722834 TGATGA
1 TTATGA
45722840 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:45723047 original size:50 final size:50
Alignment explanation
Indices: 45722934--45723175 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
45722924 ATTTGGGTAA
* * *
45722934 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
45722990 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
45723040 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
45723090 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
45723140 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
45723176 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:45723123 original size:100 final size:103
Alignment explanation
Indices: 45722934--45723183 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
45722924 ATTTGGGTAA
45722934 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
45722999 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
45723040 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
45723102 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
45723140 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
45723184 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:45829218 original size:1 final size:1
Alignment explanation
Indices: 45829208--45830086 Score: 678
Period size: 1 Copynumber: 879.0 Consensus size: 1
45829198 GAGATGATTT
* * * *
45829208 AAAAACAAAAAAAAAAATAAAAAGAAAAAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * **
45829273 AAAAAAAAATAAAAAAAAAAAAAAAAATAAAATAAAAACAAAAAAAAAAAAAAAAAAAGGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
45829338 ACAAAAAAAAAAAAAAAATAAAAATAAAAAAACAAATAAAAAAAAAAAAAAAAAATAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * * *
45829403 GAAAAAAAAAAAAATAAAGAAGAAAAAAAATAAAAACAATAAAATAAAAAAAAAAGAATAAAATA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * *** * *
45829468 AAAAAAGAAAATAAAAAATAAAATAAACAAACACATCTAAAAAAAAAAAAAAAAAGAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * *
45829533 AAAAAAAAAAAAAAAAATAAAAAATAAACAAAAAAAAAAATACACAAAGAAAAAAGAAAAAAATA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * * * * * *
45829598 AAGAAGAGAGAAAAAACAAAAAATAAAAACAAAACAAAAAAAAAACAGAAGAAAAATAAACACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * *
45829663 TAAAGAAAAAAAAAAAAAAGAAAAATAAAAAAAGAAATAAAAAAAAAAAATAAAAATAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** * * * ** * * *
45829728 AAAAAATAAAAGGAAAAAAGAAAAAAAAATAAAAAAAAAAAAATAATGAAGAAAAAAATAAAAAT
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** * * * *
45829793 TAATCAAATAAAAAAAAACAAAAAAAAAAAAAAAAAAAATAAAAAAAAAAAAAAAATAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * ** * *** * * * * *
45829858 AAAAACAAAACAAAAAAAACAACGAGAAAACGCAAATAAAGAAAAAAAAAAAATACAATAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** * * * * *
45829923 AAAAAAAATAAAAAAAAAAAAAAAAAAACTAGAAAACAAAAAAAAAAATACAAAAATAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * *
45829988 AAAATAAAAAAAGAAAATAAAAAGAAAAAAAATATAAAAAAAAAAAAATAAAATAAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
45830053 AAAAAAAAAAAATAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
45830087 CATAATAAAA
Statistics
Matches: 652, Mismatches: 226, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 652 1.00
ACGTcount: A:0.86, C:0.04, G:0.04, T:0.06
Consensus pattern (1 bp):
A
Found at i:45829236 original size:19 final size:18
Alignment explanation
Indices: 45829207--45830086 Score: 748
Period size: 19 Copynumber: 46.7 Consensus size: 18
45829197 GGAGATGATT
*
45829207 TAAAAACAAAAAAAAAAA
1 TAAAAAAAAAAAAAAAAA
45829225 TAAAAAGAAAAAAAAAAAAA
1 T-AAAA-AAAAAAAAAAAAA
*
45829245 AAAAAAAAAACAAAAAAAA
1 TAAAAAAAAA-AAAAAAAA
*
45829264 AAAAAAAAAAAAAAAAAA
1 TAAAAAAAAAAAAAAAAA
45829282 TAAAAAAAAAAAAAAAAA
1 TAAAAAAAAAAAAAAAAA
45829300 TAAAATAAAAACAAAAAAAA
1 TAAAA-AAAAA-AAAAAAAA
45829320 -AAAAAAAAAAAGGAAAAAA
1 TAAAAAAAAAAA--AAAAAA
*
45829339 -CAAAAAAAAAAAAAAAA
1 TAAAAAAAAAAAAAAAAA
* *
45829356 TAAAAATAAAAAAACAAA
1 TAAAAAAAAAAAAAAAAA
45829374 TAAAAAAAAAAAAAAAAAA
1 T-AAAAAAAAAAAAAAAAA
45829393 TAAAAAAAAAGAAAAAAAA
1 TAAAAAAAAA-AAAAAAAA
* *
45829412 -AAAAATAAAGAAGAAAAA
1 TAAAAA-AAAAAAAAAAAA
* * *
45829430 -AAATAAAAACAATAAAA
1 TAAAAAAAAAAAAAAAAA
*
45829447 TAAAAAAAAAAGAATAAAA
1 TAAAAAAAAAA-AAAAAAA
45829466 TAAAAAAAGAAAATAAAAAA
1 TAAAAAAA-AAAA-AAAAAA
* * * **
45829486 TAAAATAAACAAACACATC
1 TAAAA-AAAAAAAAAAAAA
45829505 TAAAAAAAAAAAAAAAAA
1 TAAAAAAAAAAAAAAAAA
*
45829523 GAGAAAAAAAAAAAAAAAA
1 TA-AAAAAAAAAAAAAAAA
45829542 -AAAAAAAATAAAAAATAAA
1 TAAAAAAAA-AAAAAA-AAA
* *
45829561 CAAAAAAAAAAATACACAAA
1 TAAAAAAAAAAA-A-AAAAA
* *
45829581 GAAAAAAGAAAAAAATAAA
1 TAAAAAA-AAAAAAAAAAA
* *
45829600 GAAGAGAGAAAAAACAAAAAA
1 TAA-A-A-AAAAAAAAAAAAA
45829621 TAAAAACAAAACAAAAAAAA
1 TAAAAA-AAAA-AAAAAAAA
*
45829641 -AACAGAAGAAAAATAAACACAA
1 TAA-A-AA-AAAAA-AAA-AAAA
45829663 TAAAGAAAAAAAAAAAAAA
1 TAAA-AAAAAAAAAAAAAA
* * *
45829682 GAAAAATAAAAAAAGAAA
1 TAAAAAAAAAAAAAAAAA
45829700 TAAAAAAAAAAAATAAAAA
1 TAAAAAAAAAAAA-AAAAA
45829719 TAAAAAAAAAAAAAATAAA
1 TAAAAAAAAAAAAAA-AAA
*
45829738 -AGGAAAAAAGAAAAAAAAA
1 TA--AAAAAAAAAAAAAAAA
*
45829757 T-AAAAAAAAAAAAATAA
1 TAAAAAAAAAAAAAAAAA
*
45829774 TGAAGAAAAAAATAAAAATTAA
1 T-AA-AAAAAAA-AAAAA-AAA
* *
45829796 TCAAATAAAAAAAAACAAA
1 T-AAAAAAAAAAAAAAAAA
45829815 -AAAAAAAAAAAAAAAAA
1 TAAAAAAAAAAAAAAAAA
45829832 T-AAAAAAAAAAAAAAAA
1 TAAAAAAAAAAAAAAAAA
45829849 TAAAAAAAAAAAAACAAAA
1 TAAAAAAAAAAAAA-AAAA
*
45829868 CAAAAAAAACAACGAGAAAACGCAAA
1 -TAAAAAAA-AA--A-AAAA---AAA
45829894 TAAAGAAAAAAAAAAAATACAA
1 T-AA-AAAAAAAAAAAA-A-AA
45829916 TAAAAAAAAAAAAAATAAA
1 TAAAAAAAAAAAAAA-AAA
*
45829935 -AAAAAAAAAAAAAAAAC
1 TAAAAAAAAAAAAAAAAA
*
45829952 TAGAAAACAAAAAAAAAAA
1 TA-AAAAAAAAAAAAAAAA
* *
45829971 T-ACAAAAATAAAAAAAA
1 TAAAAAAAAAAAAAAAAA
* *
45829988 -AAAATAAAAAAAGAAAA
1 TAAAAAAAAAAAAAAAAA
* *
45830005 T-AAAAAGAAAAAAAATA
1 TAAAAAAAAAAAAAAAAA
45830022 TAAAAAAAAAAAAATAAAA
1 TAAAAAAAAAAAAA-AAAA
*
45830041 TAAAAAAACAAAAAAAAA
1 TAAAAAAAAAAAAAAAAA
*
45830059 -AAAAAATAAAAAAAAAA
1 TAAAAAAAAAAAAAAAAA
45830076 -AAAAAAAAAAA
1 TAAAAAAAAAAA
45830087 CATAATAAAA
Statistics
Matches: 721, Mismatches: 78, Indels: 127
0.78 0.08 0.14
Matches are distributed among these distances:
17 135 0.19
18 174 0.24
19 206 0.29
20 113 0.16
21 51 0.07
22 18 0.02
23 8 0.01
24 4 0.01
26 7 0.01
27 5 0.01
ACGTcount: A:0.86, C:0.04, G:0.04, T:0.06
Consensus pattern (18 bp):
TAAAAAAAAAAAAAAAAA
Found at i:45831615 original size:50 final size:52
Alignment explanation
Indices: 45831560--45831668 Score: 118
Period size: 50 Copynumber: 2.1 Consensus size: 52
45831550 AGGCTTTCTA
* *
45831560 AGAAATGAGATT-TCAAAGATT-GAACATAG-GGGAAAA-AGATGGGATTTTG
1 AGAAATGAGATTAT-AAAGATTGGAACAAAGTGCGAAAATAGATGGGATTTTG
* * * *
45831609 AGGAAATGGGGTTATAAAGATTGGAACAAAGTGCGAAAATGGATTGGATTTTG
1 A-GAAATGAGATTATAAAGATTGGAACAAAGTGCGAAAATAGATGGGATTTTG
45831662 AGAAATG
1 AGAAATG
45831669 GGGGAAGTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
49 1 0.02
50 16 0.33
51 8 0.16
52 12 0.24
53 12 0.24
ACGTcount: A:0.41, C:0.04, G:0.30, T:0.25
Consensus pattern (52 bp):
AGAAATGAGATTATAAAGATTGGAACAAAGTGCGAAAATAGATGGGATTTTG
Found at i:45844891 original size:43 final size:43
Alignment explanation
Indices: 45844823--45845154 Score: 432
Period size: 43 Copynumber: 7.7 Consensus size: 43
45844813 ACGTCGCTAA
* * **
45844823 CTTTTGCGGCGCCTTTCCCACAAACGCCGCTATAGACCACAAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGACCATGAC
* * *
45844866 CTTTAGTGGCGCTTTTCCCACAAACGCCGCTATAGATCATGAG
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGACCATGAC
* *
45844909 CTTTAGCGGCGCTCTTCCCACAAACGCCGCTAAAGACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGACCATGAC
* * *
45844952 CTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGGCCATGAG
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGACCATGAC
* * *
45844995 CTTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGACCATGAT
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGACCATGAC
* *
45845038 CTTTAGCGGCGTTTTTCCCACAAACGCCGCTATAGGCCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGACCATGAC
* * * *
45845081 CTTTAGCGGCGCTTTTCCCACAAATGCTGCTATAGATCA-AAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGACCATGAC
* * * *
45845123 CTTTAGCGACGCTTCTCGCAAAAACGCCGCTA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTA
45845155 AAAACATATC
Statistics
Matches: 250, Mismatches: 39, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
42 28 0.11
43 222 0.89
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGACCATGAC
Found at i:45850671 original size:21 final size:21
Alignment explanation
Indices: 45850647--45850695 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
45850637 CCCTAAATCA
*
45850647 CTAACTCTTAACCTCTAACCC
1 CTAACCCTTAACCTCTAACCC
* **
45850668 CTAACCCTTAACCTTTAACTA
1 CTAACCCTTAACCTCTAACCC
45850689 CTAACCC
1 CTAACCC
45850696 CCAAACCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.41, G:0.00, T:0.29
Consensus pattern (21 bp):
CTAACCCTTAACCTCTAACCC
Found at i:45850813 original size:60 final size:62
Alignment explanation
Indices: 45850689--45850813 Score: 148
Period size: 60 Copynumber: 2.0 Consensus size: 62
45850679 CCTTTAACTA
* * *
45850689 CTAACCCCCAAACCTTATTTAATATATAAATTAAAAAAACTAATTAATCTAAGCTCGAATCC
1 CTAACCCCCAAACCTTATTTAATATATAAATTAAAAAAACTAATTAATCTAAACCCGAAACC
* * ** *
45850751 CTAACCCCTAAACCTT-TTT-A-ATATAAGTTAAAATGCACTAATTAATCTAAACCCTAAACC
1 CTAACCCCCAAACCTTATTTAATATATAAATTAAAA-AAACTAATTAATCTAAACCCGAAACC
45850811 CTA
1 CTA
45850814 TAAATTGACA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
59 12 0.22
60 24 0.44
61 3 0.06
62 15 0.28
ACGTcount: A:0.43, C:0.24, G:0.03, T:0.30
Consensus pattern (62 bp):
CTAACCCCCAAACCTTATTTAATATATAAATTAAAAAAACTAATTAATCTAAACCCGAAACC
Found at i:45851335 original size:20 final size:20
Alignment explanation
Indices: 45851298--45851336 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
45851288 TTAATATAAT
*
45851298 TAAATAAACAAATTAAATAG
1 TAAATAAACAAATAAAATAG
* *
45851318 TAAATAGACAGATAAAATA
1 TAAATAAACAAATAAAATA
45851337 TTTTTGCGGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.64, C:0.05, G:0.08, T:0.23
Consensus pattern (20 bp):
TAAATAAACAAATAAAATAG
Found at i:45851387 original size:41 final size:41
Alignment explanation
Indices: 45851355--45851455 Score: 184
Period size: 41 Copynumber: 2.5 Consensus size: 41
45851345 GCGCTTTTTT
*
45851355 AAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCTCC
1 AAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCTCC
45851396 AAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCTCC
1 AAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCTCC
*
45851437 AAAAATGCCACTAAAGCCC
1 AAAAATGCCGCTAAAGCCC
45851456 CGAAAGGTCC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.31, C:0.33, G:0.20, T:0.17
Consensus pattern (41 bp):
AAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCTCC
Found at i:45859995 original size:24 final size:24
Alignment explanation
Indices: 45859968--45860030 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 24
45859958 CAGCTCGAAA
*
45859968 GAGCGTCCCGTTATTAGCTCTCAT
1 GAGCATCCCGTTATTAGCTCTCAT
* * *
45859992 GAGCATCCTGATATTTGGCTCTCAT
1 GAGCATCCCGTTA-TTAGCTCTCAT
* *
45860017 GAGCTTCCCATTAT
1 GAGCATCCCGTTAT
45860031 ATGGATCTTG
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
24 11 0.37
25 19 0.63
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (24 bp):
GAGCATCCCGTTATTAGCTCTCAT
Found at i:45860187 original size:27 final size:27
Alignment explanation
Indices: 45860120--45860196 Score: 79
Period size: 25 Copynumber: 2.9 Consensus size: 27
45860110 CGCAGCTCTT
*
45860120 ATGAGCGTCCCGA-TATATGGCTC-TTC
1 ATGAGCTTCCCGATTA-ATGGCTCTTTC
* **
45860146 -GGAGCTTCCTAATTAATGGCTCTTTC
1 ATGAGCTTCCCGATTAATGGCTCTTTC
45860172 ATGAGCTTCCCGATTAATTGGCTCT
1 ATGAGCTTCCCGATTAA-TGGCTCT
45860197 CCGGAGCTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
25 15 0.38
26 5 0.12
27 13 0.32
28 7 0.17
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
ATGAGCTTCCCGATTAATGGCTCTTTC
Found at i:45860208 original size:26 final size:26
Alignment explanation
Indices: 45860137--45860219 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
45860127 TCCCGATATA
* **
45860137 TGGCTCTTCGGAGCTTCCTAATTAA-
1 TGGCTCTCCGGAGCTTCCCGATTAAT
**
45860162 TGGCTCTTTCATGAGCTTCCCGATTAAT
1 TGGCTC--TCCGGAGCTTCCCGATTAAT
45860190 TGGCTCTCCGGAGCTTCCCGA-T-AT
1 TGGCTCTCCGGAGCTTCCCGATTAAT
45860214 TGGCTC
1 TGGCTC
45860220 GCTTGAACCT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
24 8 0.17
25 7 0.15
26 13 0.27
27 14 0.29
28 6 0.12
ACGTcount: A:0.16, C:0.28, G:0.22, T:0.35
Consensus pattern (26 bp):
TGGCTCTCCGGAGCTTCCCGATTAAT
Found at i:45860237 original size:25 final size:24
Alignment explanation
Indices: 45860207--45860270 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 24
45860197 CCGGAGCTTC
45860207 CCGATATTGGCTCGCTTGAACCTT
1 CCGATATTGGCTCGCTTGAACCTT
*
45860231 CTCGATATTGGTTCGCTTGAACCTT
1 C-CGATATTGGCTCGCTTGAACCTT
45860256 CCGAATATTGGCTCG
1 CCG-ATATTGGCTCG
45860271 TATGAGCTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
24 3 0.08
25 33 0.92
ACGTcount: A:0.17, C:0.27, G:0.22, T:0.34
Consensus pattern (24 bp):
CCGATATTGGCTCGCTTGAACCTT
Found at i:45860723 original size:12 final size:12
Alignment explanation
Indices: 45860708--45860736 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
45860698 GAGAAAAGTA
45860708 GCCTTGGAATTG
1 GCCTTGGAATTG
45860720 GCCTTGGAATTG
1 GCCTTGGAATTG
45860732 GCCTT
1 GCCTT
45860737 TTTTCGTCCA
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:0.14, C:0.21, G:0.31, T:0.34
Consensus pattern (12 bp):
GCCTTGGAATTG
Found at i:45863060 original size:27 final size:25
Alignment explanation
Indices: 45863030--45863083 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
45863020 TTTCAAAATA
* *
45863030 TATATACGTATATCCATACATATTTTT
1 TATATACATATAT--ATACATATATTT
45863057 TATATACATATATATACATATATTT
1 TATATACATATATATACATATATTT
45863082 TA
1 TA
45863084 AAATCTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 13 0.52
27 12 0.48
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (25 bp):
TATATACATATATATACATATATTT
Found at i:45863645 original size:14 final size:14
Alignment explanation
Indices: 45863624--45863657 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
45863614 TGGCATGGGT
45863624 TTAT-GGGTTTTGG
1 TTATAGGGTTTTGG
45863637 TTATAGGGTTTTGG
1 TTATAGGGTTTTGG
45863651 TTATAGG
1 TTATAGG
45863658 CAAATGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTGG
Found at i:45876275 original size:50 final size:50
Alignment explanation
Indices: 45876216--45876607 Score: 358
Period size: 50 Copynumber: 7.7 Consensus size: 50
45876206 CAAGTTAAAA
* * *
45876216 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGGCGTTGCAGTGGAAC
* * * * ** *
45876266 AGATTGAAGCTACAACAGCGGATCTTGCTTTCCCGACATTGCAGTTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGGCGTTGCAGTGGAAC
* * *
45876316 AGATTGAAGCTACAACAACGGATCTTACTTTCCCGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGGCGTTGCAGTGGAAC
* * * * * * * ** *
45876366 AGATTGAAGCTACAACAGCGGATTTTGCTTCCCCGACATTGTAGTTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGGCGTTGCAGTGGAAC
*
45876416 AGATTGAAGCTACAACAGTGGATCTTAC-TTCCTTGGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCC-TGGCGTTGCAGTGGAAC
* * * *
45876466 AGATTGAAGCTACAACAGTGAATCTTAC-TTCCTTGACGAACCGTACTTCCA-TGGCAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCC-TG--G---CG---TTGCAGTGGAAC
* * **
45876523 AGATTGAAGCTACAACGGCGAATCTTACTGCCCTGGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGGCGTTGCAGTGGAAC
* * *
45876573 AGATTGAAGTTACAACAGCGAATCTTACTTCCCTG
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTG
45876608 ACGAACCTTA
Statistics
Matches: 279, Mismatches: 52, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
49 7 0.03
50 227 0.81
52 3 0.01
55 3 0.01
57 33 0.12
58 6 0.02
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGGCGTTGCAGTGGAAC
Found at i:45876381 original size:100 final size:100
Alignment explanation
Indices: 45876203--45876605 Score: 468
Period size: 100 Copynumber: 4.0 Consensus size: 100
45876193 ACCCCTGAGG
* *
45876203 TTGCAAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCGGTGCAGTGGAACAG
1 TTGC-AGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTGGCGGTGCAGTGGAACAG
*
45876268 ATTGAAGCTACAACAGCGGATCTTGCTTTCCCGACA
65 ATTGAAGCTACAACAGCGGATCTTGCTTCCCCGACA
* *
45876304 TTGCAGTTAAAAAGATTGAAGCTACAACAACGGATCTTACTTTCCCGGCGGTGCAGTGGAACAGA
1 TTGCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTGGCGGTGCAGTGGAACAGA
*
45876369 TTGAAGCTACAACAGCGGATTTTGCTTCCCCGACA
66 TTGAAGCTACAACAGCGGATCTTGCTTCCCCGACA
* * *
45876404 TTGTAGTTAAAAAGATTGAAGCTACAACAGTGGATCTTAC-TTCCTTGGCGTTGCAGTGGAACAG
1 TTGCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCC-TGGCGGTGCAGTGGAACAG
* * * *
45876468 ATTGAAGCTACAACAGTGAATCTTACTTCCTTGACGAACCGTA
65 ATTGAAGCTACAACAGCGGATCTTGCTTCC---CCG-A-C--A
* *** * * * ** *
45876511 CTTCCA-TGGCACAGATTGAAGCTACAACGGCGAATCTTACTGCCCTGGCGTTGCAGTGGAACAG
1 -TTGCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTGGCGGTGCAGTGGAACAG
* * *
45876575 ATTGAAGTTACAACAGCGAATCTTACTTCCC
65 ATTGAAGCTACAACAGCGGATCTTGCTTCCC
45876606 TGACGAACCT
Statistics
Matches: 262, Mismatches: 30, Indels: 17
0.85 0.10 0.06
Matches are distributed among these distances:
99 4 0.02
100 170 0.65
101 4 0.02
103 2 0.01
104 1 0.00
105 1 0.00
107 75 0.29
108 5 0.02
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (100 bp):
TTGCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTGGCGGTGCAGTGGAACAGA
TTGAAGCTACAACAGCGGATCTTGCTTCCCCGACA
Found at i:45879530 original size:13 final size:13
Alignment explanation
Indices: 45879514--45879539 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45879504 ATTAATTTAA
45879514 TAATTTATGTAAT
1 TAATTTATGTAAT
45879527 TAATTTATGTAAT
1 TAATTTATGTAAT
45879540 GTGAAATCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
TAATTTATGTAAT
Found at i:45879597 original size:27 final size:27
Alignment explanation
Indices: 45879553--45879605 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
45879543 AAATCAAAAA
*
45879553 AATTAAAGGGACATTTTTAA-AGAAAG
1 AATTAAACGGACATTTTTAATAGAAAG
*
45879579 AATTATAACGGACGTTTTTAATAGAAA
1 AATTA-AACGGACATTTTTAATAGAAA
45879606 TAAAAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 5 0.22
27 13 0.57
28 5 0.22
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (27 bp):
AATTAAACGGACATTTTTAATAGAAAG
Found at i:45885618 original size:28 final size:26
Alignment explanation
Indices: 45885587--45885639 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 26
45885577 AAAAATATGT
45885587 TTAAGTATGAATTATGACAAAAAAAAAA
1 TTAAGTATGAA-TATGA-AAAAAAAAAA
*
45885615 TTAAGTATGAATATGAAAGAAAAAA
1 TTAAGTATGAATATGAAAAAAAAAA
45885640 GTATAATTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 8 0.33
27 5 0.21
28 11 0.46
ACGTcount: A:0.60, C:0.02, G:0.13, T:0.25
Consensus pattern (26 bp):
TTAAGTATGAATATGAAAAAAAAAAA
Found at i:45885842 original size:16 final size:16
Alignment explanation
Indices: 45885821--45885889 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
45885811 TTTGGTTCGC
45885821 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
45885837 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
45885853 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
45885870 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
45885886 TGTA
1 TGTA
45885890 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:45885867 original size:33 final size:32
Alignment explanation
Indices: 45885821--45885889 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
45885811 TTTGGTTCGC
45885821 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
45885853 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
45885886 TGTA
1 TGTA
45885890 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:45885954 original size:44 final size:45
Alignment explanation
Indices: 45885870--45885960 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
45885860 GGATTAGAGG
* * *
45885870 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
45885915 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
45885959 TG
1 TG
45885961 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:45886142 original size:16 final size:16
Alignment explanation
Indices: 45886105--45886159 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
45886095 TTAATCATAT
*
45886105 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
45886121 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
45886136 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
45886154 -TAAAAT
1 TTAAAAT
45886160 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:45886152 original size:18 final size:18
Alignment explanation
Indices: 45886111--45886159 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
45886101 ATATTTAAAC
45886111 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
45886129 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
45886145 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
45886160 TCTTAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:45886390 original size:14 final size:15
Alignment explanation
Indices: 45886341--45886392 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
45886331 ATAAAATATA
45886341 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
45886356 TATTAAATATATTAT
1 AATTAAATATATTAT
45886371 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
45886384 AATTTAATA
1 AATTAAATA
45886393 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:45886501 original size:16 final size:17
Alignment explanation
Indices: 45886476--45886516 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
45886466 AAATAATTAA
45886476 AATT-AAATATAT-TTT
1 AATTAAAATATATATTT
45886491 AATTAAAATATATGATTT
1 AATTAAAATATAT-ATTT
45886509 AA-TAAAAT
1 AATTAAAAT
45886517 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.17
16 8 0.35
17 6 0.26
18 5 0.22
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AATTAAAATATATATTT
Found at i:45886528 original size:120 final size:120
Alignment explanation
Indices: 45886108--45886517 Score: 702
Period size: 120 Copynumber: 3.4 Consensus size: 120
45886098 ATCATATTTA
*
45886108 AACATAATTATAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATAATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
45886173 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
45886228 AACATAA-T-T-ATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATAATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
45886290 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* *
45886345 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATAATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* * *
45886410 TATTCTTATATGAATTTACTCAAATCATAATATATTATACTATAAAAGATAATTTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA-ATT
* * *
45886466 AA-ATAATTAAAATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATAATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
45886518 TAAAATAATT
Statistics
Matches: 277, Mismatches: 9, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
117 114 0.41
118 2 0.01
119 2 0.01
120 155 0.56
121 4 0.01
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATAATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:45893563 original size:29 final size:30
Alignment explanation
Indices: 45893501--45893566 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
45893491 AAAAAAGTCT
* * *
45893501 AAAAAAATTTGTTTAGCAATACGGGAGAGA
1 AAAAAAATTGGTTTAACAATACGGGAAAGA
45893531 AAAAAAATTGGTTTAACAA-ACTGGGAAAGA
1 AAAAAAATTGGTTTAACAATAC-GGGAAAGA
45893561 AAAAAA
1 AAAAAA
45893567 GGGCTATTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 2 0.06
30 30 0.94
ACGTcount: A:0.55, C:0.06, G:0.20, T:0.20
Consensus pattern (30 bp):
AAAAAAATTGGTTTAACAATACGGGAAAGA
Found at i:45894648 original size:30 final size:30
Alignment explanation
Indices: 45894551--45894649 Score: 110
Period size: 30 Copynumber: 3.3 Consensus size: 30
45894541 CGAGCTCACT
45894551 CTTAGCTCATA-TTTAGCTCACGAGCTAAAC
1 CTTAGCTCA-ACTTTAGCTCACGAGCTAAAC
* * * * * *
45894581 CTTAGCTCAACTTCAGCTTAGGAGTTTAGC
1 CTTAGCTCAACTTTAGCTCACGAGCTAAAC
* *
45894611 CTCAGCTCAACTTTAGCTCACGAGCTAAAA
1 CTTAGCTCAACTTTAGCTCACGAGCTAAAC
45894641 CTTAGCTCA
1 CTTAGCTCA
45894650 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
CTTAGCTCAACTTTAGCTCACGAGCTAAAC
Found at i:45908817 original size:23 final size:23
Alignment explanation
Indices: 45908767--45908818 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
45908757 GTTAGGTGTC
* *
45908767 AGTATAAAGACATGTCAGATATG
1 AGTATGAAGACATGTCAGAGATG
* * *
45908790 GGTATGAAGGCATGTCTGAGATG
1 AGTATGAAGACATGTCAGAGATG
45908813 AGTATG
1 AGTATG
45908819 TTCAATTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.31, T:0.27
Consensus pattern (23 bp):
AGTATGAAGACATGTCAGAGATG
Found at i:45911586 original size:16 final size:17
Alignment explanation
Indices: 45911552--45911587 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
45911542 AAATAATTTA
45911552 AAATTTATAAAATATTC
1 AAATTTATAAAATATTC
45911569 AAATTTATAAAA-ATTC
1 AAATTTATAAAATATTC
45911585 AAA
1 AAA
45911588 AAAAAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTTATAAAATATTC
Found at i:45913948 original size:23 final size:23
Alignment explanation
Indices: 45913922--45913979 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
45913912 AAAAACCTAC
45913922 AAAATATA-ATCTAAATTAAAAAT
1 AAAATATATAT-TAAATTAAAAAT
* **
45913945 AAAAAATATATTTGATTAAAAAT
1 AAAATATATATTAAATTAAAAAT
45913968 AAAATATATATT
1 AAAATATATATT
45913980 TAATATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 28 0.93
24 2 0.07
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (23 bp):
AAAATATATATTAAATTAAAAAT
Found at i:45913980 original size:23 final size:23
Alignment explanation
Indices: 45913936--45913980 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
45913926 TATAATCTAA
45913936 ATTAAAAATAAAAAATATATTTG
1 ATTAAAAATAAAAAATATATTTG
*
45913959 ATTAAAAATAAAATATATATTT
1 ATTAAAAATAAAAAATATATTT
45913981 AATATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
ATTAAAAATAAAAAATATATTTG
Found at i:45926808 original size:5 final size:5
Alignment explanation
Indices: 45926798--45926836 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
45926788 AGATTTACAC
45926798 AATCA AATCA AATCA AATCA AATCA AATCA AATCA AATC
1 AATCA AATCA AATCA AATCA AATCA AATCA AATCA AATC
45926837 TTTCCAGATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (5 bp):
AATCA
Found at i:45929733 original size:15 final size:15
Alignment explanation
Indices: 45929675--45929741 Score: 62
Period size: 15 Copynumber: 4.3 Consensus size: 15
45929665 ATAACTTAAA
* * *
45929675 TTCAACATTTAAATC
1 TTCAACACTTAATTT
*
45929690 TTCAATACTTAATTTT
1 TTCAACACTTAA-TTT
* *
45929706 TTCCCACATTTAATTT
1 TT-CAACACTTAATTT
45929722 TTCAACACTTAATTT
1 TTCAACACTTAATTT
45929737 TTCAA
1 TTCAA
45929742 ATTATCAAGC
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
15 26 0.63
16 8 0.20
17 7 0.17
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (15 bp):
TTCAACACTTAATTT
Found at i:45930354 original size:21 final size:21
Alignment explanation
Indices: 45930329--45930381 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
45930319 TGATCAAATT
*
45930329 ATATTATAAATTTAAATTTAA
1 ATATTATAAATTAAAATTTAA
*
45930350 ATATTAAAAAATTAAAATTTAA
1 ATATT-ATAAATTAAAATTTAA
* *
45930372 ACATAATAAA
1 ATATTATAAA
45930382 AAAACAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATTATAAATTAAAATTTAA
Found at i:45930382 original size:22 final size:22
Alignment explanation
Indices: 45930336--45930384 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
45930326 ATTATATTAT
* *
45930336 AAATTTAAATTTAAATATTAAA
1 AAATTAAAATTTAAACATTAAA
45930358 AAATTAAAATTTAAACATAATAAA
1 AAATTAAAATTTAAACAT--TAAA
45930382 AAA
1 AAA
45930385 ACAAAAACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 16 0.70
24 7 0.30
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATTAAAATTTAAACATTAAA
Found at i:45934559 original size:9 final size:9
Alignment explanation
Indices: 45934541--45934569 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
45934531 TAATTCATAG
45934541 TTTA-TTTA
1 TTTATTTTA
45934549 TTTATTTTA
1 TTTATTTTA
45934558 TTTATTTTA
1 TTTATTTTA
45934567 TTT
1 TTT
45934570 TCACTTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.20
9 16 0.80
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTATTTTA
Found at i:45943976 original size:27 final size:27
Alignment explanation
Indices: 45943959--45944136 Score: 106
Period size: 27 Copynumber: 6.6 Consensus size: 27
45943949 ATATTAAGTC
45943959 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* ** *
45943986 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
* * * *
45944013 CGCACACTTAGTGCCACATAGTCACACT
1 CGCACACTCAGTGCTATATAATCA-ACT
* *** ** *
45944041 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * **
45944068 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTCAGTGCTAT-ATAATCAACT
* * * * *
45944095 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
*
45944122 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
45944137 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:45944098 original size:82 final size:81
Alignment explanation
Indices: 45943980--45944135 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
45943970 TGCTATATAA
* * *
45943980 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCACACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
45944045 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
45944062 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
45944126 CACTTAGTGC
65 CACTTAGTGC
45944136 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 17 0.26
82 49 0.74
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:45951802 original size:27 final size:27
Alignment explanation
Indices: 45951785--45951961 Score: 122
Period size: 27 Copynumber: 6.6 Consensus size: 27
45951775 ATATTAAGTC
45951785 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* ** *
45951812 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
45951839 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *** ** *
45951866 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * **
45951893 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTCAGTGCTAT-ATAATCAACT
* * * * *
45951920 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
*
45951947 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
45951962 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
27 126 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:45951867 original size:54 final size:54
Alignment explanation
Indices: 45951785--45951961 Score: 221
Period size: 54 Copynumber: 3.3 Consensus size: 54
45951775 ATATTAAGTC
* * * * *
45951785 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
45951839 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* **
45951893 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
45951947 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45951962 GTACAATTTA
Statistics
Matches: 105, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
53 1 0.01
54 104 0.99
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:45951923 original size:81 final size:81
Alignment explanation
Indices: 45951806--45951960 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 81
45951796 TGCTATATAA
* * *
45951806 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAACTCGCAC
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
45951871 ACTTAGTGCCGCATGG
66 ACTTAGTGCCGCATGG
* * **
45951887 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
45951951 CACTTAGTGC
65 CACTTAGTGC
45951961 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.02
81 65 0.98
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:45963352 original size:51 final size:52
Alignment explanation
Indices: 45963297--45963404 Score: 173
Period size: 51 Copynumber: 2.1 Consensus size: 52
45963287 CATTTTTAAA
* *
45963297 TTTCATTTTAGAGAAAACCATATTCATTTCCAAATGATT-CCATTTCTCTAT
1 TTTCATTTTAGAGAAAAACATAATCATTTCCAAATGATTCCCATTTCTCTAT
* *
45963348 TTTCATTTTGGAGAAAAACATAATCATTTCCAAATGTTTCCCATTTCTCTAT
1 TTTCATTTTAGAGAAAAACATAATCATTTCCAAATGATTCCCATTTCTCTAT
45963400 TTTCA
1 TTTCA
45963405 CCATTTCTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
51 35 0.67
52 17 0.33
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (52 bp):
TTTCATTTTAGAGAAAAACATAATCATTTCCAAATGATTCCCATTTCTCTAT
Done.