Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 83 of 276
Found at i:25605636 original size:16 final size:17
Alignment explanation
Indices: 25605615--25605663 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
25605605 AATTTTAACC
*
25605615 TATAATTTATAT-ATTT
1 TATAATTAATATAATTT
25605631 TATAATTAATATAATTT
1 TATAATTAATATAATTT
* *
25605648 TAGAAATTAATTTAAT
1 TA-TAATTAATATAAT
25605664 ATTTTATTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 11 0.39
17 6 0.21
18 11 0.39
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
TATAATTAATATAATTT
Found at i:25606690 original size:30 final size:30
Alignment explanation
Indices: 25606633--25606690 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
25606623 TATTTCGACC
* *
25606633 TTTAAAAATGATAAGAATTTAATTTAATCA
1 TTTAAAAATGATAAGAATATAAATTAATCA
*
25606663 TTTAAAAATTATAA-AGATATAAATTAAT
1 TTTAAAAATGATAAGA-ATATAAATTAAT
25606691 AAAATGATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (30 bp):
TTTAAAAATGATAAGAATATAAATTAATCA
Found at i:25606973 original size:22 final size:21
Alignment explanation
Indices: 25606934--25606974 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
25606924 ATTTTTTAAG
*
25606934 ATTTTATGTTTTTTTAAATTT
1 ATTTTATGTTTTTATAAATTT
25606955 ATTTTATGTTTTTAATAAAT
1 ATTTTATGTTTTT-ATAAAT
25606975 AATAAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (21 bp):
ATTTTATGTTTTTATAAATTT
Found at i:25607091 original size:23 final size:23
Alignment explanation
Indices: 25607064--25607111 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
25607054 TATATTATAT
25607064 TTTAAACCAAAAATGTTTACTTA
1 TTTAAACCAAAAATGTTTACTTA
25607087 TTTAAACCAAAAATGTTTACTTA
1 TTTAAACCAAAAATGTTTACTTA
25607110 TT
1 TT
25607112 ATCTTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (23 bp):
TTTAAACCAAAAATGTTTACTTA
Found at i:25607296 original size:27 final size:27
Alignment explanation
Indices: 25607239--25607298 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
25607229 GGATGTGTCT
* *
25607239 CCTATCAAATAGACACCACCAATGCCA
1 CCTATCAAATAGACACAACCAATACCA
* * * *
25607266 CCTATCAGATAGGCACAACTAATACCG
1 CCTATCAAATAGACACAACCAATACCA
25607293 CCTATC
1 CCTATC
25607299 TGACACCCTC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.35, G:0.10, T:0.18
Consensus pattern (27 bp):
CCTATCAAATAGACACAACCAATACCA
Found at i:25611369 original size:13 final size:14
Alignment explanation
Indices: 25611343--25611392 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 14
25611333 TTTAAGATTT
25611343 GGGTTTGAGATTCA
1 GGGTTTGAGATTCA
*
25611357 TGGTTTGAG-TTCA
1 GGGTTTGAGATTCA
*
25611370 GGGTTT-AAATTCA
1 GGGTTTGAGATTCA
25611383 -GG-TTGAGATT
1 GGGTTTGAGATT
25611393 TCGGGCTTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
11 2 0.07
12 7 0.23
13 13 0.43
14 8 0.27
ACGTcount: A:0.22, C:0.06, G:0.32, T:0.40
Consensus pattern (14 bp):
GGGTTTGAGATTCA
Found at i:25613423 original size:21 final size:21
Alignment explanation
Indices: 25613393--25613442 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
25613383 GAAATAAATT
*
25613393 TAAATGTTATTCTTTATCATTA
1 TAAATATTATTCTTTA-CATTA
*
25613415 T-AATATTATTCTTTACATTT
1 TAAATATTATTCTTTACATTA
25613435 TAAATATT
1 TAAATATT
25613443 TTCCAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 5 0.20
21 19 0.76
22 1 0.04
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.56
Consensus pattern (21 bp):
TAAATATTATTCTTTACATTA
Found at i:25618466 original size:47 final size:46
Alignment explanation
Indices: 25618364--25618486 Score: 165
Period size: 47 Copynumber: 2.7 Consensus size: 46
25618354 TTCACATAAT
* * * * * *
25618364 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACT
1 GATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACACC
* *
25618410 GATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACACC
1 GATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACACC
25618457 GATGCCATATCCCAGATATGGTCTTATACG
1 GATGCCATATCCCAGATATGGTCTTATACG
25618487 GAAATCACTT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
46 27 0.40
47 41 0.60
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (46 bp):
GATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACACC
Found at i:25618539 original size:31 final size:31
Alignment explanation
Indices: 25618504--25618652 Score: 253
Period size: 31 Copynumber: 4.8 Consensus size: 31
25618494 CTTGTCACTT
*
25618504 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
25618535 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
25618566 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
25618597 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
25618628 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
25618653 TGTCATTTGT
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 113 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:25618732 original size:50 final size:51
Alignment explanation
Indices: 25618628--25618756 Score: 206
Period size: 50 Copynumber: 2.5 Consensus size: 51
25618618 CACTGATCAG
* * * *
25618628 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCATTGATCAGATAAGT
*
25618679 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCATTGATCAGATAAGT
25618729 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
25618757 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 48 0.67
51 24 0.33
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCATTGATCAGATAAGT
Found at i:25620697 original size:44 final size:44
Alignment explanation
Indices: 25620648--25620789 Score: 128
Period size: 44 Copynumber: 3.2 Consensus size: 44
25620638 TTTCAAAATT
25620648 TTTCCTAACTTCACATTTAACTCATACTCACTAAATTAATAATA
1 TTTCCTAACTTCACATTTAACTCATACTCACTAAATTAATAATA
* ** * * * * *
25620692 TTTCCTACTCATTTGTCGGATTTAGCAC-TATTCACT-ATTTCAA-AATT
1 TTTCCTA---A-CT-TCACATTTAACTCATACTCACTAAATT-AATAATA
*
25620739 TTTCCTAACTTCACATTTAACTTATACTCACTAAATTAATAATA
1 TTTCCTAACTTCACATTTAACTCATACTCACTAAATTAATAATA
25620783 TTTCCTA
1 TTTCCTA
25620790 CTCATTTGTC
Statistics
Matches: 72, Mismatches: 17, Indels: 18
0.67 0.16 0.17
Matches are distributed among these distances:
42 8 0.11
43 10 0.14
44 21 0.29
47 14 0.19
48 10 0.14
49 9 0.12
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42
Consensus pattern (44 bp):
TTTCCTAACTTCACATTTAACTCATACTCACTAAATTAATAATA
Found at i:25620781 original size:91 final size:91
Alignment explanation
Indices: 25620626--25620807 Score: 346
Period size: 91 Copynumber: 2.0 Consensus size: 91
25620616 ATTTTTAGTA
25620626 CACTATTCACTATTTCAAAATTTTTCCTAACTTCACATTTAACTCATACTCACTAAATTAATAAT
1 CACTATTCACTATTTCAAAATTTTTCCTAACTTCACATTTAACTCATACTCACTAAATTAATAAT
*
25620691 ATTTCCTACTCATTTGTCGGATTTAG
66 ATTTCCTACTCATTTGTCAGATTTAG
*
25620717 CACTATTCACTATTTCAAAATTTTTCCTAACTTCACATTTAACTTATACTCACTAAATTAATAAT
1 CACTATTCACTATTTCAAAATTTTTCCTAACTTCACATTTAACTCATACTCACTAAATTAATAAT
25620782 ATTTCCTACTCATTTGTCAGATTTAG
66 ATTTCCTACTCATTTGTCAGATTTAG
25620808 TGATCTCGAA
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.32, C:0.21, G:0.04, T:0.42
Consensus pattern (91 bp):
CACTATTCACTATTTCAAAATTTTTCCTAACTTCACATTTAACTCATACTCACTAAATTAATAAT
ATTTCCTACTCATTTGTCAGATTTAG
Found at i:25621152 original size:132 final size:132
Alignment explanation
Indices: 25620946--25621435 Score: 734
Period size: 132 Copynumber: 3.7 Consensus size: 132
25620936 GTGAGATTCG
* * *
25620946 ATATTTGGCAATTCGCGAAATCTTGCCCTAACGTGCTGGGTTGCAATTTCCCGTTTGCTCAAAAT
1 ATATTTGACAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCCCGTTTGCTCAAAAT
25621011 AATCGAATATCCCTTCAAAATTTCACTCATGTCTTCTAAAAATCTTTTAAAACAAATGCGATGTT
66 AATCGAATATCCCTTCAAAATTTCACTCATGTCTTCTAAAAATCTTTTAAAACAAATGCGATGTT
25621076 CA
131 CA
25621078 ATATTTGACAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCCCGTTTGCTCAAAAT
1 ATATTTGACAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCCCGTTTGCTCAAAAT
25621143 AATCGAATATCCCTTCAAAATTTCACTCATGTCTTCTAAAAATCTTTTAAAACAAATGCGATGTT
66 AATCGAATATCCCTTCAAAATTTCACTCATGTCTTCTAAAAATCTTTTAAAACAAATGCGATGTT
25621208 CA
131 CA
*
25621210 ATATTTGACAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAAT
1 ATATTTGACAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCCCGTTTGCTCAAAAT
* * * * * * ** **
25621275 AATCGAATGTCCCTTTAGAATTTCATTCATGTTTTCTAAAAA-CTCTTTAAAACAAAGGTAATAC
66 AATCGAATATCCCTTCAAAATTTCACTCATGTCTTCTAAAAATCT-TTTAAAACAAATGCGATGT
*
25621339 TCG
130 TCA
* * *
25621342 ATGTTTGACAATTCG-GGAATCGTGCCCTATCGTGCTGGGTTGCAA-TTCTCCGTTCGCTCAAAA
1 ATATTTGACAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTC-CCGTTTGCTCAAAA
* * * * *
25621405 CAATCGAATATTCCTTTAGAACTTCACTCAT
65 TAATCGAATATCCCTTCAAAATTTCACTCAT
25621436 ACTCTCTAAA
Statistics
Matches: 332, Mismatches: 24, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
130 3 0.01
131 69 0.21
132 260 0.78
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (132 bp):
ATATTTGACAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCCCGTTTGCTCAAAAT
AATCGAATATCCCTTCAAAATTTCACTCATGTCTTCTAAAAATCTTTTAAAACAAATGCGATGTT
CA
Found at i:25622307 original size:18 final size:18
Alignment explanation
Indices: 25622286--25622336 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
25622276 CATGATAGCT
25622286 TAAATAATATATAAAACA
1 TAAATAATATATAAAACA
*
25622304 TAAAAGAATA-ATAAAACA
1 T-AAATAATATATAAAACA
* *
25622322 CATAATAAGATATAA
1 TA-AATAATATATAA
25622337 TGTATATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 1 0.04
18 14 0.54
19 11 0.42
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.24
Consensus pattern (18 bp):
TAAATAATATATAAAACA
Found at i:25625834 original size:24 final size:22
Alignment explanation
Indices: 25625795--25625850 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 22
25625785 ACTAGATCTT
25625795 TTTTCGTTTTTATTTTTATTTCA
1 TTTTC-TTTTTATTTTTATTTCA
*
25625818 TTTTCTTTTTACCTTTTTATTTTA
1 TTTTCTTTTTA--TTTTTATTTCA
25625842 TTTTGCTTT
1 TTTT-CTTT
25625851 CTTTTGATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 6 0.21
23 5 0.17
24 14 0.48
25 4 0.14
ACGTcount: A:0.11, C:0.11, G:0.04, T:0.75
Consensus pattern (22 bp):
TTTTCTTTTTATTTTTATTTCA
Found at i:25625851 original size:29 final size:30
Alignment explanation
Indices: 25625791--25625855 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
25625781 CTTCACTAGA
* * *
25625791 TCTTTTTTCGTTTTTATTTTTATTTCATTT
1 TCTTTTTACCTTTTTATTTTTATTTCACTT
**
25625821 TCTTTTTACCTTTTTA-TTTTATTTTGCTT
1 TCTTTTTACCTTTTTATTTTTATTTCACTT
25625850 TCTTTT
1 TCTTTT
25625856 GATTGTTGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 16 0.53
30 14 0.47
ACGTcount: A:0.09, C:0.12, G:0.03, T:0.75
Consensus pattern (30 bp):
TCTTTTTACCTTTTTATTTTTATTTCACTT
Found at i:25629040 original size:18 final size:18
Alignment explanation
Indices: 25628984--25629040 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
25628974 GGGATTCATG
* *
25628984 TTATTTTGACAAATAATTA
1 TTATTTTTA-AAATAATTT
* *
25629003 TTATTTTTATAATAACTT
1 TTATTTTTAAAATAATTT
*
25629021 TTATTTTTAAAATCATTT
1 TTATTTTTAAAATAATTT
25629039 TT
1 TT
25629041 CAATTAAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 23 0.74
19 8 0.26
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (18 bp):
TTATTTTTAAAATAATTT
Found at i:25631572 original size:51 final size:50
Alignment explanation
Indices: 25631496--25631596 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 50
25631486 AACAGATATC
*
25631496 ATGTAATAAGTGTCGTGAAGATTTTTGTAGTAAAAGTTAGCTTTTTAAGTT
1 ATGTAATAAGTGTCATGAAGATTTTTGTAGTAAAAGTTAG-TTTTTAAGTT
* *
25631547 ATGTAATAAGTGTCATTAAGATTTTTGTATTAAAAGTTAGTTTTTAAGTT
1 ATGTAATAAGTGTCATGAAGATTTTTGTAGTAAAAGTTAGTTTTTAAGTT
25631597 TTGTTCGATT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 10 0.21
51 37 0.79
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.46
Consensus pattern (50 bp):
ATGTAATAAGTGTCATGAAGATTTTTGTAGTAAAAGTTAGTTTTTAAGTT
Found at i:25632862 original size:26 final size:26
Alignment explanation
Indices: 25632808--25632862 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
25632798 ACAAAAAAAT
* * *
25632808 TAATTTGTTCTTTACTTTATCGTATA
1 TAATTTGTTCTTTACTTTAGCATACA
* *
25632834 TAATTTTTTTTTTACTTTAGCATACA
1 TAATTTGTTCTTTACTTTAGCATACA
25632860 TAA
1 TAA
25632863 ATTAACTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.11, G:0.05, T:0.56
Consensus pattern (26 bp):
TAATTTGTTCTTTACTTTAGCATACA
Found at i:25638632 original size:19 final size:19
Alignment explanation
Indices: 25638608--25638647 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
25638598 TTTGTTTCAA
*
25638608 AGTCACGACACCCAATACT
1 AGTCACGACACACAATACT
25638627 AGTCACGACACACAATACT
1 AGTCACGACACACAATACT
25638646 AG
1 AG
25638648 AATTTAAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.33, G:0.12, T:0.15
Consensus pattern (19 bp):
AGTCACGACACACAATACT
Found at i:25641895 original size:42 final size:42
Alignment explanation
Indices: 25641849--25641931 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
25641839 CAATGTGACC
* **
25641849 CAAGTTAGTAAATTACACAGGCTGGGACACGGTCGTATGTCT
1 CAAGTCAGTAAATTACACAGGAAGGGACACGGTCGTATGTCT
* * * *
25641891 CAAGTCAGTGAGTTACACGGGAAGGGACACGGTCGTGTGTC
1 CAAGTCAGTAAATTACACAGGAAGGGACACGGTCGTATGTC
25641932 CCCTGTTTCT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (42 bp):
CAAGTCAGTAAATTACACAGGAAGGGACACGGTCGTATGTCT
Found at i:25645460 original size:34 final size:34
Alignment explanation
Indices: 25645396--25645468 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 34
25645386 CCAAACCAAC
*
25645396 TAAAATAGAATCATTAATAATGATTTTTTTTAAA
1 TAAAATAAAATCATTAATAATGATTTTTTTTAAA
*
25645430 TAAAATAAAAT-ATTAA-AATTTATTTATTTTTAAA
1 TAAAATAAAATCATTAATAA-TGATTT-TTTTTAAA
25645464 TAAAA
1 TAAAA
25645469 ATTGATATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 2 0.06
33 10 0.29
34 23 0.66
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (34 bp):
TAAAATAAAATCATTAATAATGATTTTTTTTAAA
Found at i:25647187 original size:17 final size:18
Alignment explanation
Indices: 25647162--25647195 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
25647152 TAGTCTTTTT
*
25647162 TCTAGATTA-AAAAATTG
1 TCTAAATTACAAAAATTG
25647179 TCTAAATTACAAAAATT
1 TCTAAATTACAAAAATT
25647196 TTAACACCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (18 bp):
TCTAAATTACAAAAATTG
Found at i:25651788 original size:29 final size:30
Alignment explanation
Indices: 25651724--25651788 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
25651714 TTTTCAATTG
25651724 ATAATAGCTTTGAATAAAAATATAAAAGTT
1 ATAATAGCTTTGAATAAAAATATAAAAGTT
25651754 ATAATAGCTTTGAATAAAAATATAAAAGTT
1 ATAATAGCTTTGAATAAAAATATAAAAGTT
25651784 -TAATA
1 ATAATA
25651789 TATTATTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 5 0.14
30 30 0.86
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (30 bp):
ATAATAGCTTTGAATAAAAATATAAAAGTT
Found at i:25670648 original size:32 final size:32
Alignment explanation
Indices: 25670609--25670672 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
25670599 AATTATTGTG
25670609 CTTACTTTTCTTAAACCTTTCCATACCAAAAT
1 CTTACTTTTCTTAAACCTTTCCATACCAAAAT
25670641 CTTACTTTTCTTAAACCTTTCCATACCAAAAT
1 CTTACTTTTCTTAAACCTTTCCATACCAAAAT
25670673 TAGCAATCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (32 bp):
CTTACTTTTCTTAAACCTTTCCATACCAAAAT
Found at i:25672782 original size:21 final size:21
Alignment explanation
Indices: 25672758--25672803 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
25672748 AAATTATAAA
25672758 AAAAATAAAAGAATT-TATTTT
1 AAAAATAAAA-AATTATATTTT
*
25672779 AAAAGTAAAAAATTAATATTTT
1 AAAAATAAAAAATT-ATATTTT
25672801 AAA
1 AAA
25672804 TTTTTGAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 9 0.41
22 9 0.41
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (21 bp):
AAAAATAAAAAATTATATTTT
Found at i:25684490 original size:279 final size:279
Alignment explanation
Indices: 25683987--25684546 Score: 998
Period size: 279 Copynumber: 2.0 Consensus size: 279
25683977 AAGTTATTTG
25683987 TTAGATTTTTCAAACGGCTCGATTTTTTATTTTTCTATATTGATTTTTAGTTTTTGCCCAAACCC
1 TTAGATTTTTCAAACGGCTCGATTTTTTATTTTTCTATATTGATTTTTAGTTTTTGCCCAAACCC
25684052 TCCCATATTTCGGGCAAGCCAGGTGGCTCAACCCATGAACAAGTCTACATGTGACTAAGAAAGTG
66 TCCCATATTTCGGGCAAGCCAGGTGGCTCAACCCATGAACAAGTCTACATGTGACTAAGAAAGTG
*
25684117 AACCATTTGAAAGTTCAGACCCCCAAACTGAAAGTAAATGGTGTAAGGAAATCTTCAATTAATGA
131 AACCATTTGAAAGTTCAGACCCCCAAACTGAAAGTAAATGGTGTAAGGAAATCTTCAATTAATAA
* * *
25684182 CGTCATTGACAAAATTGTTGATCCTATTAACAATGGTTTTGAAGTTGAGCTTAGGCTTGTTTTCC
196 CGTCATTGACAAAATTGTTCATCCTATTAACAATGATTTTGAAGTTGAGCTTAGGCTTGTTTCCC
*
25684247 ACCCAATG-GAACTAAGTAT
261 ACCCAATGAG-ACCAAGTAT
25684266 TTAGATTTTTCAAACGGCTCGATTTTTTATTTTTCTATATTGATTTTTAGTTTTTGCCCAAACCC
1 TTAGATTTTTCAAACGGCTCGATTTTTTATTTTTCTATATTGATTTTTAGTTTTTGCCCAAACCC
25684331 TCCCATATTTCGGGCAAGCCAGGTGGCTCAACCCATGAACAAGTCTACATGTGACTAAGAAAGTG
66 TCCCATATTTCGGGCAAGCCAGGTGGCTCAACCCATGAACAAGTCTACATGTGACTAAGAAAGTG
* *
25684396 AACCATTTGAAAGTTCAGACCCCCAAACTGTAAGTAAATTGTGT-AGTGAAATCTTCAATTAATA
131 AACCATTTGAAAGTTCAGACCCCCAAACTGAAAGTAAATGGTGTAAG-GAAATCTTCAATTAATA
* **
25684460 ACGTCATTGACAAAATTGTTCATTCTATTAATGATGATTTTGAAGTTGAGCTTAGGCTTGTTTCC
195 ACGTCATTGACAAAATTGTTCATCCTATTAACAATGATTTTGAAGTTGAGCTTAGGCTTGTTTCC
25684525 CACCCAATGAGACCAAGTAT
260 CACCCAATGAGACCAAGTAT
25684545 TT
1 TT
25684547 CGACTTCAGT
Statistics
Matches: 269, Mismatches: 10, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
278 2 0.01
279 266 0.99
280 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (279 bp):
TTAGATTTTTCAAACGGCTCGATTTTTTATTTTTCTATATTGATTTTTAGTTTTTGCCCAAACCC
TCCCATATTTCGGGCAAGCCAGGTGGCTCAACCCATGAACAAGTCTACATGTGACTAAGAAAGTG
AACCATTTGAAAGTTCAGACCCCCAAACTGAAAGTAAATGGTGTAAGGAAATCTTCAATTAATAA
CGTCATTGACAAAATTGTTCATCCTATTAACAATGATTTTGAAGTTGAGCTTAGGCTTGTTTCCC
ACCCAATGAGACCAAGTAT
Found at i:25686987 original size:13 final size:13
Alignment explanation
Indices: 25686969--25686993 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25686959 TCGTTAATAA
25686969 AAATAAAAAAATG
1 AAATAAAAAAATG
25686982 AAATAAAAAAAT
1 AAATAAAAAAAT
25686994 TCAAAAAATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AAATAAAAAAATG
Found at i:25689793 original size:168 final size:168
Alignment explanation
Indices: 25689515--25689852 Score: 676
Period size: 168 Copynumber: 2.0 Consensus size: 168
25689505 AAGCTATTTT
25689515 CATATACTAAACACACCTAATTCATGCCCAAAATATTTACTTATAAATCTTGATCAAATAACATT
1 CATATACTAAACACACCTAATTCATGCCCAAAATATTTACTTATAAATCTTGATCAAATAACATT
25689580 CATCAAACCTTTAAAACTTAGAAAATTTTCATTCATTCATTTCATTACCTCTTTAGGATTATGCA
66 CATCAAACCTTTAAAACTTAGAAAATTTTCATTCATTCATTTCATTACCTCTTTAGGATTATGCA
25689645 CCACATTTACATTCAAAATATAAAACATTTATAAGTGA
131 CCACATTTACATTCAAAATATAAAACATTTATAAGTGA
25689683 CATATACTAAACACACCTAATTCATGCCCAAAATATTTACTTATAAATCTTGATCAAATAACATT
1 CATATACTAAACACACCTAATTCATGCCCAAAATATTTACTTATAAATCTTGATCAAATAACATT
25689748 CATCAAACCTTTAAAACTTAGAAAATTTTCATTCATTCATTTCATTACCTCTTTAGGATTATGCA
66 CATCAAACCTTTAAAACTTAGAAAATTTTCATTCATTCATTTCATTACCTCTTTAGGATTATGCA
25689813 CCACATTTACATTCAAAATATAAAACATTTATAAGTGA
131 CCACATTTACATTCAAAATATAAAACATTTATAAGTGA
25689851 CA
1 CA
25689853 AACACCCAAC
Statistics
Matches: 170, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
168 170 1.00
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.35
Consensus pattern (168 bp):
CATATACTAAACACACCTAATTCATGCCCAAAATATTTACTTATAAATCTTGATCAAATAACATT
CATCAAACCTTTAAAACTTAGAAAATTTTCATTCATTCATTTCATTACCTCTTTAGGATTATGCA
CCACATTTACATTCAAAATATAAAACATTTATAAGTGA
Found at i:25691630 original size:3 final size:3
Alignment explanation
Indices: 25691609--25691652 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
25691599 TTATCTCAAT
25691609 TAA TAGA TAA -AA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
25691653 GTAAATATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 4 0.11
3 31 0.82
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:25708122 original size:21 final size:21
Alignment explanation
Indices: 25708098--25708137 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
25708088 ACATTTTCTA
*
25708098 AAGTTAAAAGTCAAAACTATC
1 AAGTTAAAAGGCAAAACTATC
25708119 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAGGCAAAACTA
25708138 CGTTGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.20
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATC
Found at i:25708798 original size:43 final size:42
Alignment explanation
Indices: 25708733--25708821 Score: 124
Period size: 43 Copynumber: 2.1 Consensus size: 42
25708723 TAAAAATATT
* *
25708733 AAAATTTAAGATGAAATTACTGATGTGACATTGAACTATTGGA
1 AAAATTTAAGATAAAATTACTGATGTGACATTAAACTATT-GA
* * *
25708776 AAAGTTTAAGATAAAATTACTGATGTGATATTAAATTATTGA
1 AAAATTTAAGATAAAATTACTGATGTGACATTAAACTATTGA
25708818 AAAA
1 AAAA
25708822 AATATATCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 5 0.12
43 35 0.88
ACGTcount: A:0.46, C:0.04, G:0.16, T:0.34
Consensus pattern (42 bp):
AAAATTTAAGATAAAATTACTGATGTGACATTAAACTATTGA
Found at i:25710356 original size:20 final size:19
Alignment explanation
Indices: 25710311--25710348 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
25710301 CATCCAAACA
25710311 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
25710330 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
25710349 TCTAGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:25711763 original size:24 final size:24
Alignment explanation
Indices: 25711736--25711787 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
25711726 TTAGTAAGTC
*
25711736 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
25711760 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
25711784 AAAT
1 AAAT
25711788 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:25716604 original size:16 final size:15
Alignment explanation
Indices: 25716583--25716624 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
25716573 TTTTTAATAT
25716583 AAATTTAGTACTTATA
1 AAATTTAGTACTTA-A
*
25716599 AAATTTAATA-TTAA
1 AAATTTAGTACTTAA
*
25716613 AAATTCAGTACT
1 AAATTTAGTACT
25716625 AAATTTTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 9 0.41
15 4 0.18
16 9 0.41
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (15 bp):
AAATTTAGTACTTAA
Found at i:25721162 original size:29 final size:28
Alignment explanation
Indices: 25721128--25721192 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 28
25721118 ATTTTACGTG
25721128 TATAATTGTACA-AAATTAAAATTTATGTA
1 TATAATTGTACATAAATTAAAATTTA--TA
*
25721157 TATAATTGTATATTAAATTAAAATTTATA
1 TATAATTGTACA-TAAATTAAAATTTATA
25721186 TATAATT
1 TATAATT
25721193 TTAAAATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 20 0.61
31 13 0.39
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.46
Consensus pattern (28 bp):
TATAATTGTACATAAATTAAAATTTATA
Found at i:25723017 original size:23 final size:22
Alignment explanation
Indices: 25722991--25723035 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
25722981 ACGAGATATT
25722991 AATTAAATCGAATAAATCTAAAA
1 AATTAAATCGAATAAATC-AAAA
*
25723014 AATTGAATCGAATAAATCAAAA
1 AATTAAATCGAATAAATCAAAA
25723036 CAACTTGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.60, C:0.09, G:0.07, T:0.24
Consensus pattern (22 bp):
AATTAAATCGAATAAATCAAAA
Found at i:25724198 original size:28 final size:31
Alignment explanation
Indices: 25724167--25724232 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 31
25724157 AGAAAACATA
*
25724167 AAATAAAAATAATTTA-TT-ATAA-AATATT
1 AAATAAAAATAAATTATTTAATAATAATATT
* *
25724195 AAATTAAATTAAATTATTTAATAATAATATT
1 AAATAAAAATAAATTATTTAATAATAATATT
25724226 -AATAAAA
1 AAATAAAA
25724233 TTTAATAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
28 13 0.42
29 2 0.06
30 10 0.32
31 6 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (31 bp):
AAATAAAAATAAATTATTTAATAATAATATT
Found at i:25724251 original size:22 final size:22
Alignment explanation
Indices: 25724210--25724252 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
25724200 AAATTAAATT
**
25724210 ATTTAATAATAATATTAATAAA
1 ATTTAATAATAATAACAATAAA
25724232 ATTTAATAATAATAACAATAA
1 ATTTAATAATAATAACAATAA
25724253 TTATCAATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
ATTTAATAATAATAACAATAAA
Found at i:25727838 original size:700 final size:700
Alignment explanation
Indices: 25726492--25727891 Score: 2791
Period size: 700 Copynumber: 2.0 Consensus size: 700
25726482 CAAGTATTGT
25726492 GTTTTAATTCATTTTCTTCATATACTGAAACAATGCAGTATTAAACATGAATATGAGGGGGAATG
1 GTTTTAATTCATTTTCTTCATATACTGAAACAATGCAGTATTAAACATGAATATGAGGGGGAATG
25726557 GAATGAAAAAAGTCGTTTAACAACATGCGATCCCCATAATAAACGCACAGTTGTTAGTTCTAACA
66 GAATGAAAAAAGTCGTTTAACAACATGCGATCCCCATAATAAACGCACAGTTGTTAGTTCTAACA
25726622 CTCCTCAAGAAGTTGAAGCAAAAAAGGAGATAATATTCACCTATGATGTTGAATACCAGGTGAGC
131 CTCCTCAAGAAGTTGAAGCAAAAAAGGAGATAATATTCACCTATGATGTTGAATACCAGGTGAGC
25726687 TCTTCAACTTCAAATAATTTGTAGGGTTGACAATTGCAATGTTAAAATTTTCCAATGGCAACCTT
196 TCTTCAACTTCAAATAATTTGTAGGGTTGACAATTGCAATGTTAAAATTTTCCAATGGCAACCTT
25726752 GAGCTGAACCCTTAGAGGCTGTATTCCTTTGTGTTTAAGTAGATTCTGTTGATATTATTACTTGG
261 GAGCTGAACCCTTAGAGGCTGTATTCCTTTGTGTTTAAGTAGATTCTGTTGATATTATTACTTGG
25726817 AAAAAATTCTCTATTGTATAACATTTTCTTGAATTAAGTTTCTGACATATAAATCTATGAGGTGC
326 AAAAAATTCTCTATTGTATAACATTTTCTTGAATTAAGTTTCTGACATATAAATCTATGAGGTGC
25726882 TAGTATTCTTAAATTTTTCTGTGCGACTTTCAGGAGAGTGATGTGAAGTGGGCATCTAGGTGGGA
391 TAGTATTCTTAAATTTTTCTGTGCGACTTTCAGGAGAGTGATGTGAAGTGGGCATCTAGGTGGGA
25726947 TGCATATCTTTTAATGAATGATGACCAAATACACTGGTTCTCAATTGTCAATTCTTTGATGATTG
456 TGCATATCTTTTAATGAATGATGACCAAATACACTGGTTCTCAATTGTCAATTCTTTGATGATTG
25727012 TTCTCTTCCTTTCGGGAATGGTAGCAATGATCATGCTAAGGACACTATACCGTGACATTTCTAGG
521 TTCTCTTCCTTTCGGGAATGGTAGCAATGATCATGCTAAGGACACTATACCGTGACATTTCTAGG
25727077 TATAACGAACTTGAGACTCAGGAAGAAGCCCAAGAAGAGACAGGATGGAAGCTTCTCCATGGGGA
586 TATAACGAACTTGAGACTCAGGAAGAAGCCCAAGAAGAGACAGGATGGAAGCTTCTCCATGGGGA
25727142 TGTTTTCAGGCCTCCATCTAATTCTGATCTACTCTGTGTCTATGTTGGCA
651 TGTTTTCAGGCCTCCATCTAATTCTGATCTACTCTGTGTCTATGTTGGCA
25727192 GTTTTAATTCATTTTCTTCATATACTGAAACAATGCAGTATTAAACATGAATATGAGGGGGAATG
1 GTTTTAATTCATTTTCTTCATATACTGAAACAATGCAGTATTAAACATGAATATGAGGGGGAATG
25727257 GAATGAAAAAAGTCGTTTAACAACATGCGATCCCCATAATAAACGCACAGTTGTTAGTTCTAACA
66 GAATGAAAAAAGTCGTTTAACAACATGCGATCCCCATAATAAACGCACAGTTGTTAGTTCTAACA
25727322 CTCCTCAAGAAGTTGAAGCAAAAAAGGAGATAATATTCACCTATGATGTTGAATACCAGGTGAGC
131 CTCCTCAAGAAGTTGAAGCAAAAAAGGAGATAATATTCACCTATGATGTTGAATACCAGGTGAGC
25727387 TCTTCAACTTCAAATAATTTGTAGGGTTGACAATTGCAATGTTAAAATTTTCCAATGGCAACCTT
196 TCTTCAACTTCAAATAATTTGTAGGGTTGACAATTGCAATGTTAAAATTTTCCAATGGCAACCTT
25727452 GAGCTGAACCCTTAGAGGCTGTATTCCTTTGTGTTTAAGTAGATTCTGTTGATATTATTACTTGG
261 GAGCTGAACCCTTAGAGGCTGTATTCCTTTGTGTTTAAGTAGATTCTGTTGATATTATTACTTGG
25727517 AAAAAATTCTCTATTGTATAACATTTTCTTGAATTAAGTTTCTGACATATAAATCTATGAGGTGC
326 AAAAAATTCTCTATTGTATAACATTTTCTTGAATTAAGTTTCTGACATATAAATCTATGAGGTGC
25727582 TAGTATTCTTAAATTTTTCTGTGCGACTTTCAGGAGAGTGATGTGAAGTGGGCATCTAGGTGGGA
391 TAGTATTCTTAAATTTTTCTGTGCGACTTTCAGGAGAGTGATGTGAAGTGGGCATCTAGGTGGGA
25727647 TGCATATCTTTTAATGAATGATGACCAAATACACTGGTTCTCAATTGTCAATTCTTTGATGATTG
456 TGCATATCTTTTAATGAATGATGACCAAATACACTGGTTCTCAATTGTCAATTCTTTGATGATTG
25727712 TTCTCTTCCTTTCGGGAATGGTAGCAATGATCATGCTAAGGACACTATACCGTGACATTTCTAGG
521 TTCTCTTCCTTTCGGGAATGGTAGCAATGATCATGCTAAGGACACTATACCGTGACATTTCTAGG
*
25727777 TATAACGAACTTGAGACTCAGGAAGAAGCCCAAGAAGAGACAGGATGGAAGCTTGTCCATGGGGA
586 TATAACGAACTTGAGACTCAGGAAGAAGCCCAAGAAGAGACAGGATGGAAGCTTCTCCATGGGGA
25727842 TGTTTTCAGGCCTCCATCTAATTCTGATCTACTCTGTGTCTATGTTGGCA
651 TGTTTTCAGGCCTCCATCTAATTCTGATCTACTCTGTGTCTATGTTGGCA
25727892 CTGGTGTTCA
Statistics
Matches: 699, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
700 699 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (700 bp):
GTTTTAATTCATTTTCTTCATATACTGAAACAATGCAGTATTAAACATGAATATGAGGGGGAATG
GAATGAAAAAAGTCGTTTAACAACATGCGATCCCCATAATAAACGCACAGTTGTTAGTTCTAACA
CTCCTCAAGAAGTTGAAGCAAAAAAGGAGATAATATTCACCTATGATGTTGAATACCAGGTGAGC
TCTTCAACTTCAAATAATTTGTAGGGTTGACAATTGCAATGTTAAAATTTTCCAATGGCAACCTT
GAGCTGAACCCTTAGAGGCTGTATTCCTTTGTGTTTAAGTAGATTCTGTTGATATTATTACTTGG
AAAAAATTCTCTATTGTATAACATTTTCTTGAATTAAGTTTCTGACATATAAATCTATGAGGTGC
TAGTATTCTTAAATTTTTCTGTGCGACTTTCAGGAGAGTGATGTGAAGTGGGCATCTAGGTGGGA
TGCATATCTTTTAATGAATGATGACCAAATACACTGGTTCTCAATTGTCAATTCTTTGATGATTG
TTCTCTTCCTTTCGGGAATGGTAGCAATGATCATGCTAAGGACACTATACCGTGACATTTCTAGG
TATAACGAACTTGAGACTCAGGAAGAAGCCCAAGAAGAGACAGGATGGAAGCTTCTCCATGGGGA
TGTTTTCAGGCCTCCATCTAATTCTGATCTACTCTGTGTCTATGTTGGCA
Found at i:25749351 original size:12 final size:12
Alignment explanation
Indices: 25749334--25749359 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25749324 AAATACTTCT
25749334 GATAACGTGGTA
1 GATAACGTGGTA
25749346 GATAACGTGGTA
1 GATAACGTGGTA
25749358 GA
1 GA
25749360 ACCAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.23
Consensus pattern (12 bp):
GATAACGTGGTA
Found at i:25756086 original size:17 final size:17
Alignment explanation
Indices: 25756066--25756099 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25756056 AGGTTTAGGT
25756066 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
25756083 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
25756100 AAATCTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:25758799 original size:12 final size:13
Alignment explanation
Indices: 25758782--25758809 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
25758772 TATAAATTAC
25758782 AAAAAAAAAAGAA
1 AAAAAAAAAAGAA
25758795 AAAAAAAAAAGAA
1 AAAAAAAAAAGAA
25758808 AA
1 AA
25758810 CTTCAATCGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGAA
Found at i:25763970 original size:31 final size:32
Alignment explanation
Indices: 25763932--25764008 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 32
25763922 ACTGTAAGTA
* *
25763932 CTAATTTGCACAAAAAAGCCAATTTCAGCTAC
1 CTAATTTGAACAAAAAAGCCAAGTTCAGCTAC
* * *
25763964 C-AATTTGAACTAAGAAGCCAAGTTCAGGTAC
1 CTAATTTGAACAAAAAAGCCAAGTTCAGCTAC
*
25763995 CTAA-TTGGACAAAA
1 CTAATTTGAACAAAA
25764009 CTAAACTTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
31 33 0.92
32 3 0.08
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.23
Consensus pattern (32 bp):
CTAATTTGAACAAAAAAGCCAAGTTCAGCTAC
Found at i:25764100 original size:58 final size:59
Alignment explanation
Indices: 25763961--25764105 Score: 170
Period size: 60 Copynumber: 2.5 Consensus size: 59
25763951 CAATTTCAGC
* * * *
25763961 TACCAATTTGAA-CTAAGAAGCCAAGTTCAGGTACCTAATTGGACAAAACTAAACTTTAGG
1 TACCAATTTGAACCT-TGAAGCCAAGTTCAAGAACCTAATTGGACAAAAC-AAACCTTAGG
* * * *
25764021 TACCAAATTGAACCTTAAAGCCAAGTTCAAGAACTTAATTGGACCAAAA-AAGCCTT-GG
1 TACCAATTTGAACCTTGAAGCCAAGTTCAAGAACCTAATTGGA-CAAAACAAACCTTAGG
25764079 TACCAATTTGAACCTTGAAGCCAAGTT
1 TACCAATTTGAACCTTGAAGCCAAGTT
25764106 TAGGTACCAA
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
58 27 0.37
59 5 0.07
60 34 0.47
61 7 0.10
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (59 bp):
TACCAATTTGAACCTTGAAGCCAAGTTCAAGAACCTAATTGGACAAAACAAACCTTAGG
Found at i:25766322 original size:25 final size:24
Alignment explanation
Indices: 25766254--25766322 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
25766244 ATTGATATCC
* * **
25766254 ATTTTTTTATTTTTGAGTAATTTA
1 ATTTTTTTATTTTTTATTCTTTTA
* * *
25766278 ATTTTTTTCTTTTATGTTCTTTTA
1 ATTTTTTTATTTTTTATTCTTTTA
25766302 ACTTTTTTTATTTTTTATTCT
1 A-TTTTTTTATTTTTTATTCT
25766323 CTTTTGCTTT
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
24 18 0.53
25 16 0.47
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.72
Consensus pattern (24 bp):
ATTTTTTTATTTTTTATTCTTTTA
Found at i:25767657 original size:16 final size:16
Alignment explanation
Indices: 25767638--25767671 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25767628 TTGAAAATAA
*
25767638 ATATAATATGTAAATG
1 ATATAATATATAAATG
*
25767654 ATATATTATATAAATG
1 ATATAATATATAAATG
25767670 AT
1 AT
25767672 TAAATATGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (16 bp):
ATATAATATATAAATG
Found at i:25768428 original size:22 final size:23
Alignment explanation
Indices: 25768403--25768449 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
25768393 TGCCACTATT
25768403 TTGCTA-TAATTTTACTATT-ATG
1 TTGCTACT-ATTTTACTATTAATG
*
25768425 TTGCTACTATTTTATTATTAATG
1 TTGCTACTATTTTACTATTAATG
25768448 TT
1 TT
25768450 TGGATATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.57
Consensus pattern (23 bp):
TTGCTACTATTTTACTATTAATG
Found at i:25770634 original size:15 final size:15
Alignment explanation
Indices: 25770611--25770640 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25770601 ATAAATAAGA
*
25770611 CTTATTTTATTTTTT
1 CTTACTTTATTTTTT
25770626 CTTACTTTATTTTTT
1 CTTACTTTATTTTTT
25770641 AAAATATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (15 bp):
CTTACTTTATTTTTT
Found at i:25776473 original size:22 final size:21
Alignment explanation
Indices: 25776417--25776473 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
25776407 TTGTTGCTTT
*
25776417 TTTTGTTGTTGTTTTCTTATAG
1 TTTTGTTGTT-ATTTCTTATAG
*
25776439 TTTTGTTGCTATTTCATTATTA-
1 TTTTGTTGTTATTTC-TTA-TAG
25776461 TTTTGTTGTTATT
1 TTTTGTTGTTATT
25776474 GTTTGAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 4 0.13
22 24 0.80
23 2 0.07
ACGTcount: A:0.12, C:0.05, G:0.14, T:0.68
Consensus pattern (21 bp):
TTTTGTTGTTATTTCTTATAG
Found at i:25778123 original size:49 final size:49
Alignment explanation
Indices: 25778067--25778165 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
25778057 TACTTCGATT
25778067 TAAATTAAATTAAATTAACCAACTGAATCAAATTAGTTTCATTAATCAA
1 TAAATTAAATTAAATTAACCAACTGAATCAAATTAGTTTCATTAATCAA
25778116 TAAATTAAATTAAATTAACCAACTGAATCAAATTAGTTTCATTAATCAA
1 TAAATTAAATTAAATTAACCAACTGAATCAAATTAGTTTCATTAATCAA
25778165 T
1 T
25778166 TATATATATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.35
Consensus pattern (49 bp):
TAAATTAAATTAAATTAACCAACTGAATCAAATTAGTTTCATTAATCAA
Found at i:25778483 original size:24 final size:25
Alignment explanation
Indices: 25778427--25778481 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
25778417 TGTAGAGTAC
25778427 TTATAAATAAATACTAATAATTTTA
1 TTATAAATAAATACTAATAATTTTA
* *
25778452 TT-TGAATAATTACTTAATAA-TTTA
1 TTATAAATAAATAC-TAATAATTTTA
25778476 TTATAA
1 TTATAA
25778482 TATTTATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (25 bp):
TTATAAATAAATACTAATAATTTTA
Found at i:25781361 original size:58 final size:59
Alignment explanation
Indices: 25781288--25781417 Score: 153
Period size: 59 Copynumber: 2.2 Consensus size: 59
25781278 CCACTAGTAA
* * *
25781288 TCACTCAACTATTAGTAAA-TTCGTTTTT-AGTCA-TTCAATTATAAAAAGTTACAAATAG
1 TCACTCAACTATTAGTAAATTTC-TTTTTAAGACACCT-AACTATAAAAAGTTACAAATAG
*
25781346 TCACTCAATTATTAGTAAATTTCTTTTTAAGACACCTAACTATAAAAAGTTACAAA-ATG
1 TCACTCAACTATTAGTAAATTTCTTTTTAAGACACCTAACTATAAAAAGTTACAAATA-G
25781405 ATCAC-CAACTATT
1 -TCACTCAACTATT
25781418 TAATTTTATT
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
58 24 0.39
59 33 0.53
60 5 0.08
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (59 bp):
TCACTCAACTATTAGTAAATTTCTTTTTAAGACACCTAACTATAAAAAGTTACAAATAG
Found at i:25802999 original size:21 final size:21
Alignment explanation
Indices: 25802974--25803016 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
25802964 TATGATGAAC
25802974 ATAATTTCGAAGATTCAATCA
1 ATAATTTCGAAGATTCAATCA
25802995 ATAATTTCGAAGATTCAATCA
1 ATAATTTCGAAGATTCAATCA
25803016 A
1 A
25803017 AACATTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (21 bp):
ATAATTTCGAAGATTCAATCA
Found at i:25813701 original size:17 final size:16
Alignment explanation
Indices: 25813679--25813717 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
25813669 GGTGAAGCAG
25813679 CTTTTTTTCTTTTCTTT
1 CTTTTTTTCTTTTC-TT
*
25813696 CTTTTTTTTTTTTCTT
1 CTTTTTTTCTTTTCTT
25813712 CTTTTT
1 CTTTTT
25813718 CAGGGTGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
CTTTTTTTCTTTTCTT
Found at i:25815513 original size:29 final size:30
Alignment explanation
Indices: 25815472--25815551 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 30
25815462 TTTGAATCTC
*
25815472 AATCAAAGTTTCATGTATATAA-T-TACACTA
1 AATCAAAG-TTCATGTATA-AACTGCACACTA
* * *
25815502 AATTAAAGTTCATATATGAAACTGCACATTA
1 AATCAAAGTTCATGTAT-AAACTGCACACTA
25815533 AATCAAAGTTCATGTATAA
1 AATCAAAGTTCATGTATAA
25815552 TTTTGAGATT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
29 10 0.24
30 11 0.27
31 20 0.49
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (30 bp):
AATCAAAGTTCATGTATAAACTGCACACTA
Found at i:25818636 original size:59 final size:59
Alignment explanation
Indices: 25818572--25818715 Score: 243
Period size: 59 Copynumber: 2.4 Consensus size: 59
25818562 AAATTTTTAT
*
25818572 ATATTTAAATTTAAAAATTGTAAACTTGGTATTTAAATTTTTATTTTTGAATCTAATTA
1 ATATTTAAATTTAAAAATTGTAAACTTGGTATTTAAATTTTTATTTTTGAATCTAATCA
* *
25818631 ATATTTAAATTTAAAAATCGTAAGCTTGGTATTTAAATTTTTATTTTTGAATCTAATCA
1 ATATTTAAATTTAAAAATTGTAAACTTGGTATTTAAATTTTTATTTTTGAATCTAATCA
* *
25818690 ATACTTAAATTTAAAAACTGTAAACT
1 ATATTTAAATTTAAAAATTGTAAACT
25818716 AACTTAATAT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 78 1.00
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (59 bp):
ATATTTAAATTTAAAAATTGTAAACTTGGTATTTAAATTTTTATTTTTGAATCTAATCA
Found at i:25821579 original size:17 final size:16
Alignment explanation
Indices: 25821557--25821599 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
25821547 GGCGCGACCT
25821557 ATTTTTTTAATAATATA
1 ATTTTTTTAA-AATATA
*
25821574 ATTTTTTTTAAAATATT
1 A-TTTTTTTAAAATATA
*
25821591 ATTATTTTA
1 ATTTTTTTA
25821600 TTATATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 7 0.30
17 7 0.30
18 9 0.39
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTTTTTAAAATATA
Found at i:25821853 original size:16 final size:17
Alignment explanation
Indices: 25821817--25821856 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
25821807 TGCAGCAGCA
*
25821817 AAGAGAGAAAAGAAGAAG
1 AAGA-AGAAAAGAAAAAG
25821835 AAGAAGAAAA-AAAAAG
1 AAGAAGAAAAGAAAAAG
25821851 AAGAAG
1 AAGAAG
25821857 CATAAGAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
17 6 0.29
18 4 0.19
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (17 bp):
AAGAAGAAAAGAAAAAG
Found at i:25825795 original size:19 final size:21
Alignment explanation
Indices: 25825771--25825815 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
25825761 CTCCTCCTTG
*
25825771 TTTTCTTC-TCCTTTCTT-TT
1 TTTTCTTCTTCCTATCTTCTT
25825790 TTTTCTTCTTCCTATCTTCTT
1 TTTTCTTCTTCCTATCTTCTT
25825811 TTTTC
1 TTTTC
25825816 CGTTCAACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.35
20 8 0.35
21 7 0.30
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTCTTCTTCCTATCTTCTT
Found at i:25826078 original size:26 final size:26
Alignment explanation
Indices: 25826042--25826092 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
25826032 AGGGAAGTCA
25826042 CGCCCCTGCAGCAGGCGCGAATGGTC
1 CGCCCCTGCAGCAGGCGCGAATGGTC
25826068 CGCCCCTGCAGCAGGCGCGAATGGT
1 CGCCCCTGCAGCAGGCGCGAATGGT
25826093 TGCGCCTCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.16, C:0.37, G:0.35, T:0.12
Consensus pattern (26 bp):
CGCCCCTGCAGCAGGCGCGAATGGTC
Found at i:25826549 original size:26 final size:26
Alignment explanation
Indices: 25826513--25826563 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
25826503 AGGGAAGTCA
*
25826513 CGCCCCTGCAGCAGGCGCGAATGGTC
1 CGCCCCCGCAGCAGGCGCGAATGGTC
25826539 CGCCCCCGCAGCAGGCGCGAATGGT
1 CGCCCCCGCAGCAGGCGCGAATGGT
25826564 TGCGCCTCCG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.16, C:0.39, G:0.35, T:0.10
Consensus pattern (26 bp):
CGCCCCCGCAGCAGGCGCGAATGGTC
Found at i:25827708 original size:26 final size:26
Alignment explanation
Indices: 25827672--25827722 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
25827662 AGGGAAGTCA
25827672 CGCCCCTGCAGCAGGCGCGAATGGTC
1 CGCCCCTGCAGCAGGCGCGAATGGTC
25827698 CGCCCCTGCAGCAGGCGCGAATGGT
1 CGCCCCTGCAGCAGGCGCGAATGGT
25827723 TGCGCCTCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.16, C:0.37, G:0.35, T:0.12
Consensus pattern (26 bp):
CGCCCCTGCAGCAGGCGCGAATGGTC
Found at i:25828073 original size:29 final size:31
Alignment explanation
Indices: 25828017--25828083 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
25828007 AGTTAGAAAA
* *
25828017 AATTTTACAGAAATTAAAATTAAAA-TTTAT
1 AATTTTACAGAAAGTAAAAATAAAATTTTAT
* *
25828047 AATTTTAC-GATAGTAAAAATATAATTTTAT
1 AATTTTACAGAAAGTAAAAATAAAATTTTAT
*
25828077 TATTTTA
1 AATTTTA
25828084 TTAGTTTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 12 0.39
30 19 0.61
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (31 bp):
AATTTTACAGAAAGTAAAAATAAAATTTTAT
Found at i:25829016 original size:29 final size:29
Alignment explanation
Indices: 25828975--25829036 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
25828965 TTAAAATTTT
* * *
25828975 AAAATAAAAAAATTATACTTTATTTCTTA
1 AAAATAAAAAAATTATAATTTAATTATTA
** *
25829004 AAAATAATTAAATTTTAATTTAATTATTA
1 AAAATAAAAAAATTATAATTTAATTATTA
25829033 AAAA
1 AAAA
25829037 ATTATAATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (29 bp):
AAAATAAAAAAATTATAATTTAATTATTA
Found at i:25835311 original size:44 final size:44
Alignment explanation
Indices: 25835262--25835354 Score: 177
Period size: 44 Copynumber: 2.1 Consensus size: 44
25835252 ATAATACAAA
25835262 ATTTACATTTTGAGATTATGTACAATGTAAAATATTAAAATAAC
1 ATTTACATTTTGAGATTATGTACAATGTAAAATATTAAAATAAC
*
25835306 ATTTACATTTTGAGATTATGTACAATGTACAATATTAAAATAAC
1 ATTTACATTTTGAGATTATGTACAATGTAAAATATTAAAATAAC
25835350 ATTTA
1 ATTTA
25835355 AACAACTCTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.40
Consensus pattern (44 bp):
ATTTACATTTTGAGATTATGTACAATGTAAAATATTAAAATAAC
Found at i:25841440 original size:132 final size:132
Alignment explanation
Indices: 25841203--25841470 Score: 509
Period size: 132 Copynumber: 2.0 Consensus size: 132
25841193 CTCTCTGGCA
25841203 TACAATAGCTCATAATCTATATGCCATTTAGTGCTCATTCAACCACATACCCATGTGACCTAGTT
1 TACAATAGCTCATAATCTATATGCCATTTAGTGCTCATTCAACCACATACCCATGTGACCTAGTT
*
25841268 TAGTTATATATATGCTTACACTACATGGACATATAACATAGCAAAATCTATTACACATTGGTACC
66 TAGTTATATATATGCTTACACTACATGGACATATAACATAGCAAAATCTATCACACATTGGTACC
25841333 AC
131 AC
*
25841335 TACAATAGCTCATAATCTATATGTCATTTAGTGCTCATTCAACCACATACCCATGTGACCTAGTT
1 TACAATAGCTCATAATCTATATGCCATTTAGTGCTCATTCAACCACATACCCATGTGACCTAGTT
*
25841400 TAGTTATATATATGCTTACACTACATGGACATATAACATAGCAAAATTTATCACACATTGGTACC
66 TAGTTATATATATGCTTACACTACATGGACATATAACATAGCAAAATCTATCACACATTGGTACC
25841465 AC
131 AC
25841467 TACA
1 TACA
25841471 TAAATATTAT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 133 1.00
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.32
Consensus pattern (132 bp):
TACAATAGCTCATAATCTATATGCCATTTAGTGCTCATTCAACCACATACCCATGTGACCTAGTT
TAGTTATATATATGCTTACACTACATGGACATATAACATAGCAAAATCTATCACACATTGGTACC
AC
Found at i:25843173 original size:16 final size:17
Alignment explanation
Indices: 25843152--25843185 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
25843142 TCTTCTCTAA
25843152 TTCTTTT-CATTGCATT
1 TTCTTTTCCATTGCATT
*
25843168 TTCTTTTCCCTTGCATT
1 TTCTTTTCCATTGCATT
25843185 T
1 T
25843186 GCTCATTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.09, C:0.24, G:0.06, T:0.62
Consensus pattern (17 bp):
TTCTTTTCCATTGCATT
Found at i:25845278 original size:54 final size:51
Alignment explanation
Indices: 25845068--25845275 Score: 254
Period size: 54 Copynumber: 3.9 Consensus size: 51
25845058 ATATATCATA
* * * * * *
25845068 CCGATGCCATATCCCAGATATGGTCTTACATTGGAGCACTTATCACTTTTCT
1 CCGATGCCATAGCCCAGCTATGGTCTTATA-CGGATCACTTATCACTTTTAT
* *
25845120 CCGATGCCATAGCCCAGCTATGGTCTTATATGGATCACTTGTATCACTTTAAT
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGGATCAC-T-TATCACTTTTAT
* *
25845173 CCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAATCACTTATCACTTGTTTT
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGG--ATCACTTATCACTT-TTAT
25845227 CCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACTTATCACTT
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGG--ATCACTTATCACTT
25845276 GTTGCCATGG
Statistics
Matches: 140, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
51 7 0.05
52 28 0.20
53 49 0.35
54 51 0.36
55 5 0.04
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.32
Consensus pattern (51 bp):
CCGATGCCATAGCCCAGCTATGGTCTTATACGGATCACTTATCACTTTTAT
Found at i:25847388 original size:21 final size:21
Alignment explanation
Indices: 25847355--25847397 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
25847345 GGAAATGCAT
* *
25847355 ACCAAGATAATGAGAATACGA
1 ACCAAAATAATGAGAAAACGA
*
25847376 ACCAAAATGATGAGAAAACGA
1 ACCAAAATAATGAGAAAACGA
25847397 A
1 A
25847398 TCCCAGCTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.14, G:0.19, T:0.12
Consensus pattern (21 bp):
ACCAAAATAATGAGAAAACGA
Found at i:25855674 original size:25 final size:24
Alignment explanation
Indices: 25855633--25855679 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
25855623 AATTATTTTT
*
25855633 TATATAAAAAATTTAAAAATATAA
1 TATATAAAAAATCTAAAAATATAA
*
25855657 TATATCAAAAATACTAAAAATAT
1 TATATAAAAAAT-CTAAAAATAT
25855680 TAAAATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (24 bp):
TATATAAAAAATCTAAAAATATAA
Found at i:25860142 original size:29 final size:29
Alignment explanation
Indices: 25860087--25860142 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
25860077 TCATAAAACA
* ** * *
25860087 TCCAATGTGGTACCTCTACTTTGAATAAG
1 TCCAATGCGGTACCTAAACTATCAATAAG
25860116 TCCAATGCGGTACCTAAACTATCAATA
1 TCCAATGCGGTACCTAAACTATCAATA
25860143 TGTATTTTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.30
Consensus pattern (29 bp):
TCCAATGCGGTACCTAAACTATCAATAAG
Found at i:25867727 original size:35 final size:35
Alignment explanation
Indices: 25867681--25867749 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
25867671 TTATTAATTC
25867681 TGGTTGGGGTTTTGAGGCCCTTTATGGGTTCACAT
1 TGGTTGGGGTTTTGAGGCCCTTTATGGGTTCACAT
25867716 TGGTTGGGGTTTTGAGGCCCTTTATGGGTTCACA
1 TGGTTGGGGTTTTGAGGCCCTTTATGGGTTCACA
25867750 AAATGTGAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.12, C:0.14, G:0.35, T:0.39
Consensus pattern (35 bp):
TGGTTGGGGTTTTGAGGCCCTTTATGGGTTCACAT
Found at i:25877191 original size:56 final size:56
Alignment explanation
Indices: 25877105--25877336 Score: 455
Period size: 56 Copynumber: 4.1 Consensus size: 56
25877095 ACAAGGGATG
25877105 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
25877161 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
25877217 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
25877273 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
25877329 ATGGGCAA
1 ATGGGCAA
25877337 TAAACTAATA
Statistics
Matches: 175, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 175 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:25881586 original size:44 final size:44
Alignment explanation
Indices: 25881530--25881990 Score: 385
Period size: 44 Copynumber: 10.5 Consensus size: 44
25881520 CACTTCCTAT
* * * *
25881530 CAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGC
1 CAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACAC
* * * * *
25881574 CAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
1 CAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACAC
* * * * *
25881619 CAATATGGGAAGACAAGATCTGC-ATATTGGATCCACTTC-CTAT
1 CAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-AC
* * * *
25881662 CAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGC
1 CAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACAC
* * * * * *
25881706 CAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCAC
1 CAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACAC
* *
25881751 CAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTAC
1 CAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-AC
* * * * *
25881794 CAATATAGAAAGATAGGATCTGCTACCTTCGATCTACTTCACGC
1 CAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACAC
* * * * *
25881838 CAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
1 CAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACAC
* * * * *
25881883 CAATATGGGAAGACAAGATCTGC-ATCCTGGATCCACTTC-CTAT
1 CAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-AC
* * * * *
25881926 CAATATAGGAAGATAGGACCTGCTATCTTCGATCTGCTTCACGC
1 CAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACAC
* * *
25881970 TAATACATGAAGACAAGATCT
1 CAATATAGGAAGACAAGATCT
25881991 ACTTTAATGA
Statistics
Matches: 319, Mismatches: 86, Indels: 24
0.74 0.20 0.06
Matches are distributed among these distances:
42 3 0.01
43 61 0.19
44 187 0.59
45 68 0.21
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (44 bp):
CAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACAC
Found at i:25881751 original size:132 final size:132
Alignment explanation
Indices: 25881514--25881995 Score: 865
Period size: 132 Copynumber: 3.7 Consensus size: 132
25881504 NNNNNNNNNN
25881514 TGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATA
1 TGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATA
25881579 CATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCAT
66 CATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCAT
*
25881644 AT
131 CT
25881646 TGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATA
1 TGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATA
*
25881711 CATGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCAT
66 CATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCAT
25881776 CT
131 CT
* * * * *
25881778 TCGATCCACTTCCTACCAATATAGAAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATA
1 TGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATA
25881843 CATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCAT
66 CATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCAT
*
25881908 CC
131 CT
* *
25881910 TGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTGCTTCACGCTAATA
1 TGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATA
*
25881975 CATGAAGACAAGATCTACTTT
66 CATGAAGACAAGATCTGCTTT
25881996 AATGACTTCA
Statistics
Matches: 333, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 333 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (132 bp):
TGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATA
CATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCAT
CT
Found at i:25883746 original size:60 final size:60
Alignment explanation
Indices: 25883653--25883775 Score: 246
Period size: 60 Copynumber: 2.0 Consensus size: 60
25883643 TTAGTTCAGT
25883653 TAATACTCGGAGAGAAGGAATTTCAACTTCTATGGGTAAAACTGCTTCCATCCCATAGAC
1 TAATACTCGGAGAGAAGGAATTTCAACTTCTATGGGTAAAACTGCTTCCATCCCATAGAC
25883713 TAATACTCGGAGAGAAGGAATTTCAACTTCTATGGGTAAAACTGCTTCCATCCCATAGAC
1 TAATACTCGGAGAGAAGGAATTTCAACTTCTATGGGTAAAACTGCTTCCATCCCATAGAC
25883773 TAA
1 TAA
25883776 AGAAAATGGT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (60 bp):
TAATACTCGGAGAGAAGGAATTTCAACTTCTATGGGTAAAACTGCTTCCATCCCATAGAC
Found at i:25897700 original size:26 final size:26
Alignment explanation
Indices: 25897671--25897725 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
25897661 CGTGTCCGAA
25897671 GATGTCTATTTTGCTACCTATAGTTT
1 GATGTCTATTTTGCTACCTATAGTTT
25897697 GATGTCTATTTTGCTACCTATAGTTT
1 GATGTCTATTTTGCTACCTATAGTTT
25897723 GAT
1 GAT
25897726 TTTGTCTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.20, C:0.15, G:0.16, T:0.49
Consensus pattern (26 bp):
GATGTCTATTTTGCTACCTATAGTTT
Found at i:25898472 original size:16 final size:15
Alignment explanation
Indices: 25898447--25898494 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
25898437 CTATTTTAAG
25898447 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
25898462 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
25898479 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
25898494 T
1 T
25898495 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:25902228 original size:12 final size:13
Alignment explanation
Indices: 25902205--25902239 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
25902195 TCATTATCAA
25902205 TATTTAATAATAT
1 TATTTAATAATAT
25902218 TATTT-ATAATAT
1 TATTTAATAATAT
*
25902230 TATTCAATAA
1 TATTTAATAA
25902240 ATAACGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (13 bp):
TATTTAATAATAT
Found at i:25903466 original size:23 final size:23
Alignment explanation
Indices: 25903449--25903510 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
25903439 ATTAAGCCTT
25903449 TGTTTTAATTCTTTTTAAAAATA
1 TGTTTTAATTCTTTTTAAAAATA
25903472 TGTTTTAATTCTTTTTAAAAATA
1 TGTTTTAATTCTTTTTAAAAATA
* *
25903495 --CTTTAATTATTTTTAA
1 TGTTTTAATTCTTTTTAA
25903511 CTTAAAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.38
23 23 0.62
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (23 bp):
TGTTTTAATTCTTTTTAAAAATA
Found at i:25909072 original size:16 final size:17
Alignment explanation
Indices: 25909029--25909078 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
25909019 TTATAAATAG
25909029 TTTTAATAAA-ATAAAT
1 TTTTAATAAATATAAAT
* *
25909045 TTTGAA-AAAAATATAAT
1 TTTTAATAAATATA-AAT
*
25909062 TTTTAATAAATAAAAAT
1 TTTTAATAAATATAAAT
25909079 AATTTTTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
15 3 0.11
16 8 0.30
17 11 0.41
18 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
TTTTAATAAATATAAAT
Found at i:25909082 original size:20 final size:18
Alignment explanation
Indices: 25909036--25909085 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 18
25909026 TAGTTTTAAT
* *
25909036 AAAATAAATTTTGAAAAA
1 AAAATAATTTTTAAAAAA
*
25909054 AATATAATTTTTAATAAATA
1 AAAATAATTTTTAA-AAA-A
25909074 AAAATAATTTTT
1 AAAATAATTTTT
25909086 GAAGTTTAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 11 0.42
19 3 0.12
20 12 0.46
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
AAAATAATTTTTAAAAAA
Found at i:25909401 original size:19 final size:19
Alignment explanation
Indices: 25909378--25909430 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
25909368 GAAAAAATAA
*
25909378 ATAAAATTTTCAAAAAAAT
1 ATAAAAATTTCAAAAAAAT
* *
25909397 TTAAAAATTCCAAAAAAAT
1 ATAAAAATTTCAAAAAAAT
*
25909416 ATAAAACTTT-AAAAA
1 ATAAAAATTTCAAAAA
25909431 TAATGAACAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 5 0.18
19 23 0.82
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (19 bp):
ATAAAAATTTCAAAAAAAT
Found at i:25912833 original size:18 final size:18
Alignment explanation
Indices: 25912804--25912842 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
25912794 ATAATACATC
25912804 AAATACATTAAAAATATTA
1 AAATACATTAAAAATA-TA
*
25912823 AAATA-ATTAAAGATATA
1 AAATACATTAAAAATATA
25912840 AAA
1 AAA
25912843 CAAAAGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 9 0.47
19 5 0.26
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (18 bp):
AAATACATTAAAAATATA
Found at i:25919464 original size:29 final size:29
Alignment explanation
Indices: 25919431--25919495 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
25919421 TTAATTTTTT
* * *
25919431 TATTTGTTATTTTAAAGCAAATGAGATTA
1 TATTTGTTACTTTAAAGCAAATAAGAATA
* *
25919460 TATTTTTTACTTTGAAGCAAATAAGAATA
1 TATTTGTTACTTTAAAGCAAATAAGAATA
25919489 -ATTTGTT
1 TATTTGTT
25919496 GAGTTTAGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 6 0.20
29 24 0.80
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.46
Consensus pattern (29 bp):
TATTTGTTACTTTAAAGCAAATAAGAATA
Found at i:25922586 original size:4 final size:4
Alignment explanation
Indices: 25922577--25922605 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
25922567 AGCAAACGTG
25922577 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
25922606 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:25923433 original size:47 final size:47
Alignment explanation
Indices: 25923369--25923479 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
25923359 GACATTGAGT
* *
25923369 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTATTC
* * *
25923416 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTATTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
25923463 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
25923480 CTTATCCCGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
Found at i:25928732 original size:21 final size:21
Alignment explanation
Indices: 25928706--25928746 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25928696 AGACGAACAA
* *
25928706 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
25928727 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
25928747 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:25931540 original size:41 final size:41
Alignment explanation
Indices: 25931495--25931573 Score: 158
Period size: 41 Copynumber: 1.9 Consensus size: 41
25931485 AATTTTTCTA
25931495 TTAAAGATTGATATAATTGATAAAATAACCACATTTCACTG
1 TTAAAGATTGATATAATTGATAAAATAACCACATTTCACTG
25931536 TTAAAGATTGATATAATTGATAAAATAACCACATTTCA
1 TTAAAGATTGATATAATTGATAAAATAACCACATTTCA
25931574 ATTGTAATGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (41 bp):
TTAAAGATTGATATAATTGATAAAATAACCACATTTCACTG
Found at i:25934500 original size:100 final size:100
Alignment explanation
Indices: 25934337--25934528 Score: 276
Period size: 100 Copynumber: 1.9 Consensus size: 100
25934327 TTGATTGCAC
* * *
25934337 TTTAAATCTCCAATTGAGTTGTCATCTCAAAAAGGTAGAATTTTAAATATTAAAGGCATTCAAAC
1 TTTAAATCCCCAATTAAGTTGTCAGCTCAAAAAGGTAGAATTTTAAATATTAAAGGCATTCAAAC
*
25934402 TAATTGTTAAAGACTGAAAATGATGTTGATCACAA
66 TAATTGCTAAAGACTGAAAATGATGTTGATCACAA
* * * **
25934437 TTTAAATCCCCATTTAAGTTTTCAGCTCAGAAAGGTAGAATTTTAAATATTAGGGGCATTCAAAC
1 TTTAAATCCCCAATTAAGTTGTCAGCTCAAAAAGGTAGAATTTTAAATATTAAAGGCATTCAAAC
** *
25934502 TAATTGCTCTAGACTGTAAATGATGTT
66 TAATTGCTAAAGACTGAAAATGATGTT
25934529 AATGTTCAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (100 bp):
TTTAAATCCCCAATTAAGTTGTCAGCTCAAAAAGGTAGAATTTTAAATATTAAAGGCATTCAAAC
TAATTGCTAAAGACTGAAAATGATGTTGATCACAA
Found at i:25939417 original size:20 final size:20
Alignment explanation
Indices: 25939380--25939429 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
25939370 TTTAATTGGT
25939380 TATACTTTA-ATATCTAAAA
1 TATACTTTATATATCTAAAA
* * *
25939399 TATAGTTTATATATTTAAAT
1 TATACTTTATATATCTAAAA
*
25939419 TATATTTTATA
1 TATACTTTATA
25939430 AATAATTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (20 bp):
TATACTTTATATATCTAAAA
Found at i:25940488 original size:13 final size:13
Alignment explanation
Indices: 25940472--25940511 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
25940462 TTTAAACCAA
25940472 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
25940485 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
25940498 ACATTTCAAAAGC
1 ACTTTTCAAAAGC
25940511 A
1 A
25940512 TTGCCAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:25941236 original size:26 final size:27
Alignment explanation
Indices: 25941186--25941238 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
25941176 TTTTATTGGT
*
25941186 TAAGATTATTTTATTATTATTTTAATA
1 TAAGATTATTTTATTATTATATTAATA
25941213 TAAGA-TATTTTATTATT-TAATTAATA
1 TAAGATTATTTTATTATTAT-ATTAATA
25941239 GTTAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 1 0.04
26 18 0.75
27 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (27 bp):
TAAGATTATTTTATTATTATATTAATA
Found at i:25941779 original size:23 final size:22
Alignment explanation
Indices: 25941724--25941786 Score: 99
Period size: 22 Copynumber: 2.8 Consensus size: 22
25941714 TATTAGTTAA
25941724 AAGGCTTAAATAGAAATTTTTC
1 AAGGCTTAAATAGAAATTTTTC
25941746 AAGGCTTAAATAGAAATTTTTC
1 AAGGCTTAAATAGAAATTTTTC
* *
25941768 AAGGTTTAAAATGGAAATT
1 AAGGCTT-AAATAGAAATT
25941787 AGGCCATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
22 28 0.74
23 10 0.26
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (22 bp):
AAGGCTTAAATAGAAATTTTTC
Found at i:25945283 original size:52 final size:51
Alignment explanation
Indices: 25945206--25945454 Score: 231
Period size: 52 Copynumber: 4.9 Consensus size: 51
25945196 ATTGACGGGA
* * * *
25945206 TAAATGTGATATGTGCGCCTGTATAAGACCATAGTTGGGCTATGGAATCGG
1 TAAATGTGATATGTGCTCCCGTATAAGACCATAGCTGGGCTATGGCATCGG
25945257 TAAATTGTGATATGT-CTGCCCGTATAAGACCATAGCTGGGCTATGGCATCGG
1 TAAA-TGTGATATGTGCT-CCCGTATAAGACCATAGCTGGGCTATGGCATCGG
* * * * * * *
25945309 TGCATTGTGATATGTACTCCCCTATAAAACCATGGCTGGGCTATGGCATTGG
1 T-AAATGTGATATGTGCTCCCGTATAAGACCATAGCTGGGCTATGGCATCGG
* * * * *
25945361 TATGATGTGATAATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGC
1 TA-AATGTGAT-ATGTGCTCCCGTATAAGACCATAGCTGGGCTATGGCATCGG
* * * *
25945414 T--A--TGATATGTGAT-CCGTGTAAGACCATGGCAGGGCTATGGC
1 TAAATGTGATATGTGCTCCCGTATAAGACCATAGCTGGGCTATGGC
25945455 TTCGATGTGT
Statistics
Matches: 164, Mismatches: 28, Indels: 17
0.78 0.13 0.08
Matches are distributed among these distances:
46 23 0.14
47 6 0.04
48 4 0.02
50 1 0.01
51 5 0.03
52 89 0.54
53 36 0.22
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (51 bp):
TAAATGTGATATGTGCTCCCGTATAAGACCATAGCTGGGCTATGGCATCGG
Found at i:25952518 original size:24 final size:24
Alignment explanation
Indices: 25952491--25952542 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
25952481 TTTGTAGGTC
* *
25952491 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
** *
25952515 AAATTTATTATACTAGTAAATACT
1 AAATAAATTATACTAATAAATACT
25952539 AAAT
1 AAAT
25952543 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:25953873 original size:19 final size:20
Alignment explanation
Indices: 25953831--25953874 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
25953821 CCATATTAAC
** *
25953831 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
25953851 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
25953870 ACAGT
1 ACAGT
25953875 CTATATGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:25969162 original size:23 final size:22
Alignment explanation
Indices: 25969136--25969184 Score: 80
Period size: 23 Copynumber: 2.2 Consensus size: 22
25969126 CAAGAAATTA
25969136 TTTCAGTTATTTCTACTGCGTT
1 TTTCAGTTATTTCTACTGCGTT
*
25969158 GTTTCGGTTATTTCTACTGCGTT
1 -TTTCAGTTATTTCTACTGCGTT
25969181 TTTC
1 TTTC
25969185 TCCTTTCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.55
Consensus pattern (22 bp):
TTTCAGTTATTTCTACTGCGTT
Found at i:25969191 original size:20 final size:22
Alignment explanation
Indices: 25969144--25969193 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
25969134 TATTTCAGTT
*
25969144 ATTTCTACTGCGTTGTTTCGGTT
1 ATTTCTACTGCGTTGTTTC-GTC
25969167 ATTTCTACTGCGTT-TTTC-TC
1 ATTTCTACTGCGTTGTTTCGTC
*
25969187 CTTTCTA
1 ATTTCTA
25969194 AGAGTTCACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.28
22 4 0.16
23 14 0.56
ACGTcount: A:0.10, C:0.22, G:0.14, T:0.54
Consensus pattern (22 bp):
ATTTCTACTGCGTTGTTTCGTC
Found at i:25988247 original size:22 final size:22
Alignment explanation
Indices: 25988222--25988264 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
25988212 CTTATAAATG
*
25988222 AAAATAGTAATT-TTATTATAT
1 AAAAAAGTAATTATTATTATAT
* *
25988243 AAAAAATTAATTATTTTTATAT
1 AAAAAAGTAATTATTATTATAT
25988265 TATATAGGCG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AAAAAAGTAATTATTATTATAT
Found at i:25991572 original size:50 final size:49
Alignment explanation
Indices: 25991510--25991646 Score: 202
Period size: 50 Copynumber: 2.7 Consensus size: 49
25991500 TAATTTTTTT
* *
25991510 TCTCAGATATTATTTATATTAAATTCATTTATTTTATTTCTTTTTAAATA
1 TCTCATATATTATTTATATTAAATT-ATTTATTTTATTTATTTTTAAATA
* *
25991560 TCTCATATATTATTTGTATTAAGCTTATTTATTTTATTTATTTTTAAATA
1 TCTCATATATTATTTATATTAA-ATTATTTATTTTATTTATTTTTAAATA
*
25991610 TCTCATATATTATTTATATTAAACTTGTTTATTTTAT
1 TCTCATATATTATTTATATTAAA-TTATTTATTTTAT
25991647 CATTTTAGGT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
50 76 0.97
51 2 0.03
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.59
Consensus pattern (49 bp):
TCTCATATATTATTTATATTAAATTATTTATTTTATTTATTTTTAAATA
Found at i:25991713 original size:50 final size:49
Alignment explanation
Indices: 25991516--25991721 Score: 182
Period size: 50 Copynumber: 4.1 Consensus size: 49
25991506 TTTTTCTCAG
* * * *
25991516 ATATTATTTATATTAAA-TTCATTTATTTTATTTCTTTTTAAATATCTCAT
1 ATATTATTCATATTAAACTT-ATTTATTTTATTT-ATTTTAAATCTTTCAT
** * * *
25991566 ATATTATTTGTATTAAGCTTATTTATTTTATTTATTTTTAAATATCTCAT
1 ATATTATTCATATTAAACTTATTTATTTTATTTA-TTTTAAATCTTTCAT
* * * **
25991616 ATATTATTTATATTAAACTTGTTTATTTTA-TCATTTTAGGTCTTTTCAT
1 ATATTATTCATATTAAACTTATTTATTTTATTTATTTTAAATC-TTTCAT
* * * *
25991665 ATGTTATTCATTTTTAAACTTATTTATTTCATTTATTATAAATCTTTCAT
1 ATATTATTCA-TATTAAACTTATTTATTTTATTTATTTTAAATCTTTCAT
25991715 AGTATTA
1 A-TATTA
25991722 ATTTTGAACA
Statistics
Matches: 129, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
48 6 0.05
49 15 0.12
50 94 0.73
51 14 0.11
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (49 bp):
ATATTATTCATATTAAACTTATTTATTTTATTTATTTTAAATCTTTCAT
Found at i:25991752 original size:14 final size:14
Alignment explanation
Indices: 25991733--25991764 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
25991723 TTTTGAACAA
*
25991733 TTTTATTTTTTTAT
1 TTTTATTTGTTTAT
25991747 TTTTATTTGTTTAT
1 TTTTATTTGTTTAT
25991761 TTTT
1 TTTT
25991765 TTAAAGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.84
Consensus pattern (14 bp):
TTTTATTTGTTTAT
Found at i:25991805 original size:17 final size:18
Alignment explanation
Indices: 25991771--25991812 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
25991761 TTTTTTAAAG
*
25991771 GTTTTTTCATATAGTATTT
1 GTTTTATCATATA-TATTT
25991790 GTTTTATCATAT-TATTT
1 GTTTTATCATATATATTT
*
25991807 ATTTTA
1 GTTTTA
25991813 ATCTGTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 10 0.48
19 11 0.52
ACGTcount: A:0.24, C:0.05, G:0.07, T:0.64
Consensus pattern (18 bp):
GTTTTATCATATATATTT
Found at i:25991889 original size:26 final size:25
Alignment explanation
Indices: 25991848--25991917 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 25
25991838 ATTATTTTAT
25991848 ATTATTTACTTTAAATTGCTTTATAA
1 ATTATTTA-TTTAAATTGCTTTATAA
* *
25991874 ATTATTTATTTCAAATTGTTTTATAT
1 ATTATTTATTT-AAATTGCTTTATAA
*
25991900 TTTATTTATGTTAGAATT
1 ATTATTTAT-TTA-AATT
25991918 TATATATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
25 3 0.08
26 29 0.76
27 6 0.16
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (25 bp):
ATTATTTATTTAAATTGCTTTATAA
Found at i:25992079 original size:49 final size:47
Alignment explanation
Indices: 25991952--25992080 Score: 129
Period size: 49 Copynumber: 2.6 Consensus size: 47
25991942 ATTTCATATT
*
25991952 TTATTTA-TTTTAAATTTTTTATATATT-ATTTATTTTAAACTTTTTATA
1 TTATTTACTTTTAAATTTTTT-T-T-TTCATTTATTTTAAACTTGTTATA
* * *
25992000 TTTTTTAC-TTTAAATGGTTTCATTTATCATTTATTTTAAACCTTGTTATA
1 TTATTTACTTTTAAAT--TTT-TTTTTTCATTTATTTTAAA-CTTGTTATA
25992050 TTATTTACTTTTAAATATTTTTTTTTCATTT
1 TTATTTACTTTTAAAT-TTTTTTTTTCATTT
25992081 GTCTTCAATT
Statistics
Matches: 66, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
48 14 0.21
49 22 0.33
50 22 0.33
51 8 0.12
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.64
Consensus pattern (47 bp):
TTATTTACTTTTAAATTTTTTTTTTCATTTATTTTAAACTTGTTATA
Found at i:25995969 original size:53 final size:55
Alignment explanation
Indices: 25995889--25995994 Score: 180
Period size: 53 Copynumber: 2.0 Consensus size: 55
25995879 TTAAAATTTA
*
25995889 AATATTATTTAATATTTTTTTTCATTTATGTAATTTTAGTTAATTTTAATTTTTG
1 AATATTATTTAATATTTTTTTTCATTTATGTAATTTTAATTAATTTTAATTTTTG
*
25995944 AATATTATTTAATA-TTTTTTT-ATTTATGTAATTTTAATTAATTTTTATTTT
1 AATATTATTTAATATTTTTTTTCATTTATGTAATTTTAATTAATTTTAATTTT
25995995 ATAATTTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
53 28 0.57
54 7 0.14
55 14 0.29
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.65
Consensus pattern (55 bp):
AATATTATTTAATATTTTTTTTCATTTATGTAATTTTAATTAATTTTAATTTTTG
Found at i:25995988 original size:24 final size:25
Alignment explanation
Indices: 25995907--25996002 Score: 70
Period size: 25 Copynumber: 3.8 Consensus size: 25
25995897 TTAATATTTT
* *
25995907 TTTTCATTTATGTAATTTTAGTTAA
1 TTTTAATTTATGTAATTTTAATTAA
* * *
25995932 TTTTAATTTTTGAATATTATTTAA-TATT
1 TTTTAATTTATG--TAAT-TTTAATTA-A
*
25995960 TTTTTATTTATGTAATTTTAATTAA
1 TTTTAATTTATGTAATTTTAATTAA
* *
25995985 TTTTTATTT-TATAATTTT
1 TTTTAATTTATGTAATTTT
25996003 TTATAACAGC
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
24 8 0.14
25 24 0.43
26 5 0.09
27 5 0.09
28 14 0.25
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (25 bp):
TTTTAATTTATGTAATTTTAATTAA
Found at i:25998244 original size:126 final size:126
Alignment explanation
Indices: 25998019--25998271 Score: 389
Period size: 126 Copynumber: 2.0 Consensus size: 126
25998009 GGCCAAGCAT
* * * *
25998019 GAACTACTGTAGAAAAAGGGCGTCTACGTGGGAGCATTTTTCTGTAATTTTGATGACAATGCATA
1 GAACTACTGTAGAAAAAGAGCGTCCACATGAGAGCATTTTTCTGTAATTTTGATGACAATGCATA
* * *
25998084 CTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAATGTCTTCTCAAAATTATTTTTTCAG
66 CTTCTTGAAACGTTTTTGACACTACTGGTTCAGAAATGTCTTCTCAAAATTATTTTTTCAG
* * * *
25998145 GAACTACTGTAGAAAAAGAGTGTCCACATGAGAGCATTTTTCTGTAATTTTGTTGACAGTGCATT
1 GAACTACTGTAGAAAAAGAGCGTCCACATGAGAGCATTTTTCTGTAATTTTGATGACAATGCATA
* *
25998210 CTTCTTGAAACGTTTTTGATACTACTGGTTCAGAAATGTCTTCTTAAAATTATTTTTTCAG
66 CTTCTTGAAACGTTTTTGACACTACTGGTTCAGAAATGTCTTCTCAAAATTATTTTTTCAG
25998271 G
1 G
25998272 GTCAAAATAG
Statistics
Matches: 114, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
126 114 1.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.39
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACATGAGAGCATTTTTCTGTAATTTTGATGACAATGCATA
CTTCTTGAAACGTTTTTGACACTACTGGTTCAGAAATGTCTTCTCAAAATTATTTTTTCAG
Found at i:25998344 original size:30 final size:29
Alignment explanation
Indices: 25998309--25998429 Score: 102
Period size: 30 Copynumber: 4.0 Consensus size: 29
25998299 ATAAACACAA
*
25998309 TATTTAAAAAAACAAAACCCTAATTTAATT
1 TATTT-AAAACACAAAACCCTAATTTAATT
* * * *
25998339 AATTT--AACACTAAACCTTAGTTTAATT
1 TATTTAAAACACAAAACCCTAATTTAATT
*
25998366 TATTTAAAACCCTAAAACCCTAATTTAATT
1 TATTTAAAACAC-AAAACCCTAATTTAATT
*
25998396 TATTTATTTAAACACCATAAATCCTAATTTAATT
1 TATTTA---AAACA-CA-AAACCCTAATTTAATT
25998430 AAAATCCTAA
Statistics
Matches: 71, Mismatches: 12, Indels: 12
0.75 0.13 0.13
Matches are distributed among these distances:
27 22 0.31
29 4 0.06
30 24 0.34
33 5 0.07
34 16 0.23
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.39
Consensus pattern (29 bp):
TATTTAAAACACAAAACCCTAATTTAATT
Found at i:25998406 original size:34 final size:34
Alignment explanation
Indices: 25998363--25998429 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
25998353 CCTTAGTTTA
*
25998363 ATTTATTTAAA-ACCCTAAAACCCTAATTTAATTT
1 ATTTATTTAAACACCAT-AAACCCTAATTTAATTT
*
25998397 ATTTATTTAAACACCATAAATCCTAATTTAATT
1 ATTTATTTAAACACCATAAACCCTAATTTAATT
25998430 AAAATCCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 26 0.87
35 4 0.13
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (34 bp):
ATTTATTTAAACACCATAAACCCTAATTTAATTT
Found at i:26006258 original size:3 final size:3
Alignment explanation
Indices: 26006250--26006274 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
26006240 ATGTACGAAG
26006250 AGC AGC AGC AGC AGC AGC AGC AGC A
1 AGC AGC AGC AGC AGC AGC AGC AGC A
26006275 AGTGATGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.32, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:26008317 original size:27 final size:30
Alignment explanation
Indices: 26008287--26008348 Score: 69
Period size: 31 Copynumber: 2.1 Consensus size: 30
26008277 ATATTAAGAG
26008287 TTAAAT-TT-TAT-TTAAA-AAATAGATAAA
1 TTAAATCTTATATATTAAATAAATA-ATAAA
*
26008314 TTAATTCTTATATATTAAATTAAATAATAAA
1 TTAAATCTTATATATTAAA-TAAATAATAAA
26008345 TTAA
1 TTAA
26008349 TCATTATGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
27 5 0.17
28 2 0.07
29 3 0.10
30 5 0.17
31 9 0.31
32 5 0.17
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (30 bp):
TTAAATCTTATATATTAAATAAATAATAAA
Found at i:26015533 original size:68 final size:68
Alignment explanation
Indices: 26015459--26015614 Score: 260
Period size: 68 Copynumber: 2.3 Consensus size: 68
26015449 ATAAATTATA
*
26015459 TAAAATTAAAATTTTACACCAATTTAAATAGATTATTTCTCTTTACTTTTTTT-ATATTTTATTA
1 TAAAATTAAAATTTTACACCAATTTAAATAGATTATTTCTCTTTA-TTTTTTTAAGATTTTATTA
26015523 TATT
65 TATT
* *
26015527 TAAAATTAAAATTTTACAACAATTTAAGTAGATTATTTCTCTTTATTTTTTTAAGATTTTATTAT
1 TAAAATTAAAATTTTACACCAATTTAAATAGATTATTTCTCTTTATTTTTTTAAGATTTTATTAT
26015592 ATT
66 ATT
*
26015595 TAAGATTAAAATTTTACACC
1 TAAAATTAAAATTTTACACC
26015615 TTTATTCTAC
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
67 7 0.09
68 75 0.91
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.51
Consensus pattern (68 bp):
TAAAATTAAAATTTTACACCAATTTAAATAGATTATTTCTCTTTATTTTTTTAAGATTTTATTAT
ATT
Found at i:26017807 original size:21 final size:22
Alignment explanation
Indices: 26017783--26017836 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
26017773 GACAGAAATT
26017783 AAATTATAATTTTT-ATAACAA
1 AAATTATAATTTTTAATAACAA
**
26017804 AAATATATAATTTTTAATTTCAA
1 AAAT-TATAATTTTTAATAACAA
26017827 AAATTA-AATT
1 AAATTATAATT
26017837 AAATTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 8 0.28
22 12 0.41
23 9 0.31
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
AAATTATAATTTTTAATAACAA
Found at i:26018731 original size:20 final size:21
Alignment explanation
Indices: 26018681--26018731 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
26018671 ATATCACATC
* * *
26018681 AATAAAAATTTTAAATTTTAT
1 AATAAAAATTTTAAATATAAA
*
26018702 AA-AAATATTTTAAA-ATAAA
1 AATAAAAATTTTAAATATAAA
26018721 AATAAAAATTT
1 AATAAAAATTT
26018732 AGAAAAATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
19 4 0.17
20 18 0.75
21 2 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AATAAAAATTTTAAATATAAA
Found at i:26021451 original size:6 final size:7
Alignment explanation
Indices: 26021427--26021456 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
26021417 AATTGTCAAA
26021427 AAAAATT
1 AAAAATT
26021434 AAAAATT
1 AAAAATT
*
26021441 AAAAATA
1 AAAAATT
26021448 AAAAATT
1 AAAAATT
26021455 AA
1 AA
26021457 TATGAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:26021788 original size:2 final size:2
Alignment explanation
Indices: 26021783--26021832 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
26021773 CTCACTCTCT
26021783 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
26021825 CA CA CA CA
1 CA CA CA CA
26021833 TATATGCATG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:26028216 original size:3 final size:3
Alignment explanation
Indices: 26028195--26028287 Score: 98
Period size: 3 Copynumber: 30.7 Consensus size: 3
26028185 ATAAAAATGT
* * ** *
26028195 TAA TAA AAA TAA TAG TAA TAA TAA TAA TAGA -AA TCG TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
* *
26028240 TAA TAA TAA TAT TAA TAA TAA TAA TAA TAG TAA TAA TAA TGAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
26028286 TA
1 TA
26028288 TGAATTTTTG
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
2 1 0.01
3 68 0.93
4 4 0.05
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.32
Consensus pattern (3 bp):
TAA
Done.