Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 206 of 259
Found at i:65477361 original size:18 final size:17
Alignment explanation
Indices: 65477335--65477368 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
65477325 TTTAAAATTT
65477335 GTAAATAAAAAGTTATAA
1 GTAAAT-AAAAGTTATAA
*
65477353 GTAATTAAAAGTTATA
1 GTAAATAAAAGTTATA
65477369 TCACTTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (17 bp):
GTAAATAAAAGTTATAA
Found at i:65481429 original size:31 final size:30
Alignment explanation
Indices: 65481372--65481429 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
65481362 TAGCAAAATT
* *
65481372 AACAATAAAACAAAAGTTATATAATATTCA
1 AACAATAAAACAAAAGTGATACAATATTCA
65481402 AACAATAACAACAAAA-TGATAGCAATAT
1 AACAATAA-AACAAAAGTGATA-CAATAT
65481430 AATAGCGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.22
Consensus pattern (30 bp):
AACAATAAAACAAAAGTGATACAATATTCA
Found at i:65490623 original size:25 final size:25
Alignment explanation
Indices: 65490571--65490624 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
65490561 AAATATTTTC
* ** *
65490571 TAAAATTAAATATTTTAATTAATGA
1 TAAAATTAAAAATAATAATTAATAA
*
65490596 TAAAATTAAAAATAATAATTACTAA
1 TAAAATTAAAAATAATAATTAATAA
65490621 TAAA
1 TAAA
65490625 TGTAATAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
TAAAATTAAAAATAATAATTAATAA
Found at i:65492535 original size:14 final size:15
Alignment explanation
Indices: 65492515--65492549 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
65492505 AAAGTGTTGT
65492515 AAAATA-TTAAAAAA
1 AAAATATTTAAAAAA
*
65492529 TAAATATTTAAAAAA
1 AAAATATTTAAAAAA
65492544 AAAATA
1 AAAATA
65492550 CTTGTCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATATTTAAAAAA
Found at i:65492665 original size:17 final size:16
Alignment explanation
Indices: 65492617--65492672 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 16
65492607 TACCAAATAC
*
65492617 TAATCCATTTAAATTT
1 TAATACATTTAAATTT
*
65492633 ATAATAAATCTTAAATTT
1 -TAATACAT-TTAAATTT
*
65492651 TAATACATTTCAAATTA
1 TAATACATTT-AAATTT
65492668 TAATA
1 TAATA
65492673 TGGGTTTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 2 0.06
17 23 0.70
18 8 0.24
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATACATTTAAATTT
Found at i:65493677 original size:55 final size:54
Alignment explanation
Indices: 65493606--65493713 Score: 198
Period size: 55 Copynumber: 2.0 Consensus size: 54
65493596 TTTTGGAAGA
*
65493606 TAGCTAAGCTTCCTTGTCTCTTTGTCTTAATATCATGTAATAGAAAGGAGATTAT
1 TAGCTAAGCTTACTTGTCTCTTTGTCTTAATAT-ATGTAATAGAAAGGAGATTAT
65493661 TAGCTAAGCTTACTTGTCTCTTTGTCTTAATATATGTAATAGAAAGGAGATTA
1 TAGCTAAGCTTACTTGTCTCTTTGTCTTAATATATGTAATAGAAAGGAGATTA
65493714 GTTAATACAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
54 20 0.38
55 32 0.62
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.40
Consensus pattern (54 bp):
TAGCTAAGCTTACTTGTCTCTTTGTCTTAATATATGTAATAGAAAGGAGATTAT
Found at i:65503390 original size:83 final size:81
Alignment explanation
Indices: 65503247--65503424 Score: 248
Period size: 83 Copynumber: 2.2 Consensus size: 81
65503237 CCTTGGCCTA
* ** * * *
65503247 CAAAAATAAAAATTTGTTATTTCAGTCCCCTCATAAATAATAAAATTGTAAATTAATATATGGTG
1 CAAAAATAAAAAATTACTATTTCAGACCCCTCATAAATAATAAAATTATAAATTAATATATAGTG
65503312 AAATTGCACTTTGACC
66 AAATTGCACTTTGACC
* * *
65503328 ATCAAAAATAAAAAATTACTATTTTAGACCCCTCATAAATAATGAAATTATAAATTACTATATAG
1 --CAAAAATAAAAAATTACTATTTCAGACCCCTCATAAATAATAAAATTATAAATTAATATATAG
65503393 TGAAATTGCACTTTGACC
64 TGAAATTGCACTTTGACC
*
65503411 CTAAAATAAAAAAT
1 CAAAAATAAAAAAT
65503425 CTTTTTAGTC
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 13 0.15
83 72 0.85
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (81 bp):
CAAAAATAAAAAATTACTATTTCAGACCCCTCATAAATAATAAAATTATAAATTAATATATAGTG
AAATTGCACTTTGACC
Found at i:65503476 original size:77 final size:82
Alignment explanation
Indices: 65503246--65503476 Score: 213
Period size: 83 Copynumber: 2.9 Consensus size: 82
65503236 GCCTTGGCCT
* ** * * * * * * * *
65503246 ACAAAAATAAAAATTTGTTATTTCAGTCCCCTCATAAATAATAAAATTGTAAATTAATATATGGT
1 ACAAAAATAAAAAATTACTATTTTAGACCCCTAAAAAAGAATGAAATTATAAATTAATATATGAT
65503311 GAAATTGCACTTTGACC
66 GAAATTGCACTTTGACC
* * * *
65503328 ATCAAAAATAAAAAATTACTATTTTAGACCCCTCATAAATAATGAAATTATAAATTACTATAT-A
1 A-CAAAAATAAAAAATTACTATTTTAGACCCCTAAAAAAGAATGAAATTATAAATTAATATATGA
65503392 GTGAAATTGCACTTTGACC
65 -TGAAATTGCACTTTGACC
* * * * *
65503411 -CTAAAATAAAAAA-T-CT-TTTTAG-TCCCTAAAAAAGGATGAAATTATAAATGAATAAATGAT
1 ACAAAAATAAAAAATTACTATTTTAGACCCCTAAAAAAGAATGAAATTATAAATTAATATATGAT
*
65503471 AAAATT
66 GAAATT
65503477 ATGTTTTGAC
Statistics
Matches: 127, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
77 33 0.26
78 7 0.06
79 2 0.02
80 1 0.01
81 12 0.09
82 1 0.01
83 71 0.56
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (82 bp):
ACAAAAATAAAAAATTACTATTTTAGACCCCTAAAAAAGAATGAAATTATAAATTAATATATGAT
GAAATTGCACTTTGACC
Found at i:65505950 original size:29 final size:30
Alignment explanation
Indices: 65505887--65505952 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
65505877 TACACTACTA
65505887 GTCACCCAATTATCAGCAAATTTCTTTTTTG
1 GTCACCCAATTAT-AGCAAATTTCTTTTTTG
*
65505918 GTCACCCAATTAT-TC-AATTGTCTTTTTTG
1 GTCACCCAATTATAGCAAATT-TCTTTTTTG
65505947 GTCACC
1 GTCACC
65505953 AAAGGGCTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
28 4 0.12
29 16 0.48
31 13 0.39
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.42
Consensus pattern (30 bp):
GTCACCCAATTATAGCAAATTTCTTTTTTG
Found at i:65513404 original size:30 final size:30
Alignment explanation
Indices: 65513370--65513428 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
65513360 AAAGACGAAT
*
65513370 TCCACACAGGCTGAG-CACACGCCCGTGTGA
1 TCCACACAGGCTG-GCCACACGCCCATGTGA
65513400 TCCACACAGGCTGGCCACACGCCCATGTG
1 TCCACACAGGCTGGCCACACGCCCATGTG
65513429 GCATCCCGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.22, C:0.39, G:0.25, T:0.14
Consensus pattern (30 bp):
TCCACACAGGCTGGCCACACGCCCATGTGA
Found at i:65538029 original size:171 final size:171
Alignment explanation
Indices: 65537743--65538082 Score: 635
Period size: 171 Copynumber: 2.0 Consensus size: 171
65537733 AAGTTGGTTT
65537743 AAAATACAACTCCAATTCTGTATTTAGATTAAGAACTCAGCTACTTCATATGAGCCAATTCAAAG
1 AAAATACAACTCCAATTCTGTATTTAGATTAAGAACTCAGCTACTTCATATGAGCCAATTCAAAG
* * *
65537808 ATGAAAGAGAAAAAACGTAAAAGATCAAAGATGACGCCAGGGTTTTGCTGGCCAAAGGGAGAATG
66 ATAAAAGAGAAAAAACGTAAAAGATCAAAGATGACGCCAGGGTATTGCTGGCCAAAGGAAGAATG
65537873 TTATAAAACCAAGAATCTTTGGATCTAAGAAATCCTAACTA
131 TTATAAAACCAAGAATCTTTGGATCTAAGAAATCCTAACTA
*
65537914 AAAATACAACTCCAATTCTGTATTTAGATTAAGAACTGAGCTACTTCATATGAGCCAATTCAAAG
1 AAAATACAACTCCAATTCTGTATTTAGATTAAGAACTCAGCTACTTCATATGAGCCAATTCAAAG
*
65537979 ATAAAAGAGAAAAAACGTAAAAGATCAGAGATGACGCCAGGGTATTGCTGGCCAAAGGAAGAATG
66 ATAAAAGAGAAAAAACGTAAAAGATCAAAGATGACGCCAGGGTATTGCTGGCCAAAGGAAGAATG
65538044 TTATAAAACCAAGAATCTTTGGATCTAAGAAATCCTAAC
131 TTATAAAACCAAGAATCTTTGGATCTAAGAAATCCTAAC
65538083 CATGAATTAA
Statistics
Matches: 164, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
171 164 1.00
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.24
Consensus pattern (171 bp):
AAAATACAACTCCAATTCTGTATTTAGATTAAGAACTCAGCTACTTCATATGAGCCAATTCAAAG
ATAAAAGAGAAAAAACGTAAAAGATCAAAGATGACGCCAGGGTATTGCTGGCCAAAGGAAGAATG
TTATAAAACCAAGAATCTTTGGATCTAAGAAATCCTAACTA
Found at i:65539717 original size:13 final size:13
Alignment explanation
Indices: 65539699--65539759 Score: 70
Period size: 13 Copynumber: 4.8 Consensus size: 13
65539689 TCTGTTTGGT
65539699 AATGCTTTTGAAA
1 AATGCTTTTGAAA
65539712 AATGCTTTTGAAA
1 AATGCTTTTGAAA
* *
65539725 AGTG-TTGTGAAA
1 AATGCTTTTGAAA
* *
65539737 AATACTTTTGAGA
1 AATGCTTTTGAAA
*
65539750 AGTGCTTTTG
1 AATGCTTTTG
65539760 TAAATTTAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
12 9 0.23
13 30 0.77
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (13 bp):
AATGCTTTTGAAA
Found at i:65539764 original size:25 final size:26
Alignment explanation
Indices: 65539701--65539759 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
65539691 TGTTTGGTAA
*
65539701 TGCTTTTGAAAAATGCTTTTGAAAAG
1 TGCTTTTGAAAAATACTTTTGAAAAG
* *
65539727 TG-TTGTGAAAAATACTTTTGAGAAG
1 TGCTTTTGAAAAATACTTTTGAAAAG
65539752 TGCTTTTG
1 TGCTTTTG
65539760 TAAATTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 22 0.79
26 6 0.21
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.41
Consensus pattern (26 bp):
TGCTTTTGAAAAATACTTTTGAAAAG
Found at i:65549589 original size:196 final size:196
Alignment explanation
Indices: 65549248--65549698 Score: 426
Period size: 196 Copynumber: 2.3 Consensus size: 196
65549238 AAATCGAAGC
*
65549248 ACACAAAATGTTTTAATTTTTCTCTTCTTTAACATAATTTGTCATAAACTCTTACTAATCAATTT
1 ACACAAAATGTTATAATTTTTCTCTTCTTTAACATAATTTGTCATAAACTCTTACTAATCAATTT
* * ** * * * ** * *
65549313 GACCTTTAATTCATTTGCTTACAAATCGAGGTCTACCCCAATGGTTAAGGGTGTTTATTACCCCA
66 AACCTTTAATTCATTTACTTACAAATCGAACTCTACCCCAATAGTCAAAGGCATTCACTACCCCA
** * *
65549378 GGTGTAGTCTGAGTTCAAGTCACACTAGTCGCATTGGTTATTCAGGCTTTGCCCTATTATTGCAA
131 AATATACTCTGAGTTCAAGTCACACTAGTCGCATTGGTTATTCAGGCTTTGCCCTATTATTGCAA
65549443 A
196 A
* * *
65549444 ACACAAAATGTTATAATTTTTCTCTTCTTTTACATAATTTTTCTTAAACTCTTACTAATCAATTT
1 ACACAAAATGTTATAATTTTTCTCTTCTTTAACATAATTTGTCATAAACTCTTACTAATCAATTT
* * * * * * *
65549509 AACCTTTAATTTATTTACTTATAAGAT-TAACTTTACCTCGATAGTCAAAGGCATTCACTGCCCC
66 AACCTTTAATTCATTTACTTACAA-ATCGAACTCTACCCCAATAGTCAAAGGCATTCACTACCCC
* * * * * ** **
65549573 AAATATGACT-TGAGTTCGAGTCGCACTAAT--C-TTAGTTGTTCAAACTTTGTCATGTTATTGT
130 AAATAT-ACTCTGAGTTCAAGTCACACTAGTCGCATTGGTTATTCAGGCTTTG-C--CCTA-T-T
*
65549634 AATTCACAAA
189 -ATT-GCAAA
* * * *
65549644 ACACAAAATGTTTTAATTTTTCACTTCTTTTACATAAATTGTCATAAACTCTTAC
1 ACACAAAATGTTATAATTTTTCTCTTCTTTAACATAATTTGTCATAAACTCTTAC
65549699 CTTTAATTTA
Statistics
Matches: 205, Mismatches: 41, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
193 14 0.07
194 2 0.01
196 126 0.61
197 5 0.02
198 1 0.00
199 3 0.01
200 54 0.26
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (196 bp):
ACACAAAATGTTATAATTTTTCTCTTCTTTAACATAATTTGTCATAAACTCTTACTAATCAATTT
AACCTTTAATTCATTTACTTACAAATCGAACTCTACCCCAATAGTCAAAGGCATTCACTACCCCA
AATATACTCTGAGTTCAAGTCACACTAGTCGCATTGGTTATTCAGGCTTTGCCCTATTATTGCAA
A
Found at i:65549750 original size:35 final size:35
Alignment explanation
Indices: 65549700--65549775 Score: 145
Period size: 35 Copynumber: 2.2 Consensus size: 35
65549690 AACTCTTACC
65549700 TTTA-ATTTATTTGCTTACGAATCAGATTATAACA
1 TTTACATTTATTTGCTTACGAATCAGATTATAACA
65549734 TTTACATTTATTTGCTTACGAATCAGATTATAACA
1 TTTACATTTATTTGCTTACGAATCAGATTATAACA
65549769 TTTACAT
1 TTTACAT
65549776 AAAAGAGTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
34 4 0.10
35 37 0.90
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (35 bp):
TTTACATTTATTTGCTTACGAATCAGATTATAACA
Found at i:65555844 original size:2 final size:2
Alignment explanation
Indices: 65555837--65555874 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
65555827 GAAAATGAGT
* *
65555837 GA GA GA GA GA GA GA GG GA GA GG GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
65555875 AAGTGATTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (2 bp):
GA
Found at i:65556758 original size:19 final size:21
Alignment explanation
Indices: 65556736--65556781 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
65556726 AAAATATAAA
*
65556736 AAAATTCTTAAT-T-TTTTTG
1 AAAATTCGTAATCTATTTTTG
*
65556755 AAAATTCGTAATCTATTTTTT
1 AAAATTCGTAATCTATTTTTG
65556776 AAAATT
1 AAAATT
65556782 ATATAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 11 0.48
20 1 0.04
21 11 0.48
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (21 bp):
AAAATTCGTAATCTATTTTTG
Found at i:65556813 original size:23 final size:23
Alignment explanation
Indices: 65556746--65556814 Score: 56
Period size: 22 Copynumber: 3.1 Consensus size: 23
65556736 AAAATTCTTA
* *
65556746 ATTTTTTTGAAAATTCGTAAT-CT
1 ATTTTTTTG-AAATTTGTAATAAT
* *
65556769 A-TTTTTT-AAAATTAT-ATAAAT
1 ATTTTTTTGAAATTTGTAAT-AAT
65556790 ATTTTTTTGAAATTTGTAATAAT
1 ATTTTTTTGAAATTTGTAATAAT
65556813 AT
1 AT
65556815 GAAAAATACT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 2 0.06
22 12 0.34
23 12 0.34
24 2 0.06
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.54
Consensus pattern (23 bp):
ATTTTTTTGAAATTTGTAATAAT
Found at i:65564120 original size:22 final size:22
Alignment explanation
Indices: 65564094--65564137 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
65564084 TAAACATTTA
*
65564094 TTTA-TTTTAGTAGAAAACTTAC
1 TTTATTTTTAG-AAAAAACTTAC
65564116 TTTATTTTTAGAAAAAACTTAC
1 TTTATTTTTAGAAAAAACTTAC
65564138 GAGTTATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (22 bp):
TTTATTTTTAGAAAAAACTTAC
Found at i:65564195 original size:52 final size:53
Alignment explanation
Indices: 65564116--65564219 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 53
65564106 GAAAACTTAC
65564116 TTTATTTTTAGAAAAAACTTACGAGTTATCAAAACCGACTTAGATTAACTAAG
1 TTTATTTTTAGAAAAAACTTACGAGTTATCAAAACCGACTTAGATTAACTAAG
65564169 TTTATTTTTAG-AAAAACTTACGAGTTATCAAAACCGACTTAGATTAACTAA
1 TTTATTTTTAGAAAAAACTTACGAGTTATCAAAACCGACTTAGATTAACTAA
65564220 CCTATGTAAC
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 40 0.78
53 11 0.22
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (53 bp):
TTTATTTTTAGAAAAAACTTACGAGTTATCAAAACCGACTTAGATTAACTAAG
Found at i:65568181 original size:31 final size:30
Alignment explanation
Indices: 65568134--65568194 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
65568124 TATTTTATTA
65568134 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
* * *
65568164 TTAATTTTTTTTATTATTTTAGAGGTATTTG
1 TTAA-TTTTGTTATTATTTTAAAGGCATTTG
65568195 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.25, C:0.02, G:0.13, T:0.61
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTG
Found at i:65570661 original size:23 final size:21
Alignment explanation
Indices: 65570614--65570749 Score: 83
Period size: 23 Copynumber: 5.9 Consensus size: 21
65570604 GATATGTTGA
*
65570614 AGGGTATATTGGTTGTGTTTTG
1 AGGGTATATTGGTTGTG-TTAG
65570636 AGGGTATACTTGGTTGTGTTAGG
1 AGGGTATA-TTGGTTGTGTTA-G
* *
65570659 AGGTTATATGCATGGTTATGATTAG
1 AGGGTATAT---TGGTTGTG-TTAG
* ** *
65570684 AGGGTAGATTTGGTTGCATTCGG
1 AGGGTATA-TTGGTTGTGTT-AG
*
65570707 AGGGTACATATGGTTGTGTTTAG
1 AGGGTATAT-TGGTTGTG-TTAG
*
65570730 AGGCTATGATTGGTTGTGTT
1 AGGGTAT-ATTGGTTGTGTT
65570750 TGGTGGGTGA
Statistics
Matches: 88, Mismatches: 15, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
22 16 0.18
23 50 0.57
24 4 0.05
25 14 0.16
26 4 0.05
ACGTcount: A:0.19, C:0.04, G:0.35, T:0.41
Consensus pattern (21 bp):
AGGGTATATTGGTTGTGTTAG
Found at i:65573128 original size:40 final size:40
Alignment explanation
Indices: 65573084--65573264 Score: 335
Period size: 40 Copynumber: 4.5 Consensus size: 40
65573074 TTGGCTCGGA
* *
65573084 TATAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
65573124 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
*
65573164 TATAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
65573204 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
65573244 TATAATAACCCGCACGAATGC
1 TATAATAACCCGCACGAATGC
65573265 TATGCACATA
Statistics
Matches: 137, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 137 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (40 bp):
TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
Found at i:65579392 original size:2 final size:2
Alignment explanation
Indices: 65579375--65579408 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
65579365 TAACTCAACA
* *
65579375 AT AT AC AT AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65579409 GTCATATCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:65579924 original size:29 final size:29
Alignment explanation
Indices: 65579892--65579956 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
65579882 AAATTAGTCT
*
65579892 TCAAACTTTAAAATATTCTAATTACATCC
1 TCAAACTTTAAAACATTCTAATTACATCC
65579921 TCAAACTTTAAAACATTCTAATTACATCC
1 TCAAACTTTAAAACATTCTAATTACATCC
65579950 TCAAACT
1 TCAAACT
65579957 ATCAATGTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (29 bp):
TCAAACTTTAAAACATTCTAATTACATCC
Found at i:65580197 original size:56 final size:56
Alignment explanation
Indices: 65580131--65580244 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
65580121 GTTTTTTTTT
65580131 ATAGAAATTATCGTTTACTCTCTCTTTTTTCATTTTTACTTATTTTTGGTTTTAAA
1 ATAGAAATTATCGTTTACTCTCTCTTTTTTCATTTTTACTTATTTTTGGTTTTAAA
*
65580187 ATAGAAATTATCGTTTACTCTCTCTTTTTTTATTTTTACTTATTTTTGGTTTTAAA
1 ATAGAAATTATCGTTTACTCTCTCTTTTTTCATTTTTACTTATTTTTGGTTTTAAA
65580243 AT
1 AT
65580245 TTAAAAGTTA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.24, C:0.11, G:0.07, T:0.58
Consensus pattern (56 bp):
ATAGAAATTATCGTTTACTCTCTCTTTTTTCATTTTTACTTATTTTTGGTTTTAAA
Found at i:65586018 original size:85 final size:85
Alignment explanation
Indices: 65585870--65586045 Score: 316
Period size: 85 Copynumber: 2.1 Consensus size: 85
65585860 ATATCCTAGA
*
65585870 TGAGATCGTTATTCTACTTAATAAATGATACAGATAGGTCATAATTCAAACTGATAACATTGAAT
1 TGAGATCGTTATTCTACTTAATAAATGATACAGATAAGTCATAATTCAAACTGATAACATTGAAT
65585935 TAGTCCAAACCTTTGACTGT
66 TAGTCCAAACCTTTGACTGT
* *
65585955 TGAGATCTTTATTCTACTTAATAAATGATACAGATAAGTCATAATTCAAACTGATAACTTTGAAT
1 TGAGATCGTTATTCTACTTAATAAATGATACAGATAAGTCATAATTCAAACTGATAACATTGAAT
*
65586020 TAGTCCAAACCTTTGATTGT
66 TAGTCCAAACCTTTGACTGT
65586040 TGAGAT
1 TGAGAT
65586046 TGGAGGATCT
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (85 bp):
TGAGATCGTTATTCTACTTAATAAATGATACAGATAAGTCATAATTCAAACTGATAACATTGAAT
TAGTCCAAACCTTTGACTGT
Found at i:65586590 original size:89 final size:89
Alignment explanation
Indices: 65586390--65586590 Score: 249
Period size: 89 Copynumber: 2.2 Consensus size: 89
65586380 TTTTAAAAGG
** * * *
65586390 AGCAATTAAGCCGTTGTCTTTTTTTTTCCACTCATTTGGATACTTGAATTTTCAAAATGCATCAA
1 AGCAATTAAGCCCATG-C-TTTTTTTTCCACTCAATTGGATACTTAAACTTTCAAAATGCATCAA
* **
65586455 AAAGGCCCTGGAACCTTTAAAAAAAA
64 AAAGACCCTCAAACCTTTAAAAAAAA
* * *
65586481 AGCAATTAAGCCCCTACTTTTTTTTCCACTCAATTGGGTACTTAAACTTTCAAAATGCATCAAAA
1 AGCAATTAAGCCCATGCTTTTTTTTCCACTCAATTGGATACTTAAACTTTCAAAATGCATCAAAA
* * **
65586546 AGATCCTCAAACTTTTTCAAAAAA
66 AGACCCTCAAACCTTTAAAAAAAA
65586570 AGCAATTAAGCCCATGCTTTT
1 AGCAATTAAGCCCATGCTTTT
65586591 ATTAAAAATT
Statistics
Matches: 94, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
89 80 0.85
90 1 0.01
91 13 0.14
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (89 bp):
AGCAATTAAGCCCATGCTTTTTTTTCCACTCAATTGGATACTTAAACTTTCAAAATGCATCAAAA
AGACCCTCAAACCTTTAAAAAAAA
Found at i:65586711 original size:19 final size:19
Alignment explanation
Indices: 65586687--65586747 Score: 88
Period size: 19 Copynumber: 3.2 Consensus size: 19
65586677 AAATTTTATT
65586687 AAAAA-TGAGAAAAAATATA
1 AAAAATTGA-AAAAAATATA
*
65586706 AAAAATTGTAAAAAATATA
1 AAAAATTGAAAAAAATATA
65586725 AAAAATTGTAAAAAAATATA
1 AAAAATTG-AAAAAAATATA
65586745 AAA
1 AAA
65586748 TATATAGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
19 23 0.61
20 15 0.39
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (19 bp):
AAAAATTGAAAAAAATATA
Found at i:65586746 original size:10 final size:10
Alignment explanation
Indices: 65586696--65586747 Score: 61
Period size: 10 Copynumber: 5.3 Consensus size: 10
65586686 TAAAAATGAG
65586696 AAAAAATATA
1 AAAAAATATA
* *
65586706 AAAAATTGT-
1 AAAAAATATA
65586715 AAAAAATATA
1 AAAAAATATA
* *
65586725 AAAAATTGTA
1 AAAAAATATA
65586735 AAAAAATATA
1 AAAAAATATA
65586745 AAA
1 AAA
65586748 TATATAGAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
9 7 0.21
10 26 0.79
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (10 bp):
AAAAAATATA
Found at i:65586752 original size:29 final size:29
Alignment explanation
Indices: 65586696--65586772 Score: 50
Period size: 29 Copynumber: 2.7 Consensus size: 29
65586686 TAAAAATGAG
*
65586696 AAAAAATATAAAAAATTGTA-AAAAATATA
1 AAAAAATATAAAAAA-TATAGAAAAATATA
* * *
65586725 AAAAATTGTAAAAAAATATA-AAATATATA
1 AAAAAATAT-AAAAAATATAGAAAAATATA
* * * *
65586754 GAAATATTTAAAAATTATA
1 AAAAAATATAAAAAATATA
65586773 ATTTGTTATA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
28 9 0.24
29 23 0.61
30 6 0.16
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.29
Consensus pattern (29 bp):
AAAAAATATAAAAAATATAGAAAAATATA
Found at i:65586768 original size:10 final size:9
Alignment explanation
Indices: 65586696--65586773 Score: 66
Period size: 9 Copynumber: 8.2 Consensus size: 9
65586686 TAAAAATGAG
65586696 AAAAAATAT
1 AAAAAATAT
*
65586705 AAAAAATTGT
1 AAAAAA-TAT
65586715 AAAAAATAT
1 AAAAAATAT
*
65586724 AAAAAATTGT
1 AAAAAA-TAT
65586734 AAAAAAATAT
1 -AAAAAATAT
*
65586744 AAAATATAT
1 AAAAAATAT
* *
65586753 AGAAATATTT
1 A-AAAAATAT
*
65586763 AAAAATTAT
1 AAAAAATAT
65586772 AA
1 AA
65586774 TTTGTTATAA
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
9 30 0.54
10 20 0.36
11 6 0.11
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (9 bp):
AAAAAATAT
Found at i:65587110 original size:57 final size:56
Alignment explanation
Indices: 65587031--65587137 Score: 128
Period size: 57 Copynumber: 1.9 Consensus size: 56
65587021 TTTTGATGCA
*
65587031 TTTTATAATTTTGTTATGATTTTT-ATAGAAGTTTACAATTTTT-TATTTTTTACGAT
1 TTTTATAATTTTGTTATAATTTTTAATA-AAGTTTA-AATTTTTATATTTTTTACGAT
* * * *
65587087 TTTTATAAATTTTTTTCTAATTTTTAATAAATTTTAACTTTTTATATTTTT
1 TTTTAT-AATTTTGTTATAATTTTTAATAAAGTTTAAATTTTTATATTTTT
65587138 ATTAAAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
56 12 0.28
57 28 0.65
58 3 0.07
ACGTcount: A:0.28, C:0.04, G:0.05, T:0.64
Consensus pattern (56 bp):
TTTTATAATTTTGTTATAATTTTTAATAAAGTTTAAATTTTTATATTTTTTACGAT
Found at i:65587148 original size:18 final size:18
Alignment explanation
Indices: 65587127--65587175 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
65587117 ATTTTAACTT
65587127 TTTATATTTTTATTAAAA
1 TTTATATTTTTATTAAAA
* *
65587145 TTTAATAATTTTACTAAAA
1 TTT-ATATTTTTATTAAAA
65587164 TTTAT-TTTTTAT
1 TTTATATTTTTAT
65587176 AATTTTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 5 0.19
18 5 0.19
19 16 0.62
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATATTTTTATTAAAA
Found at i:65594631 original size:18 final size:18
Alignment explanation
Indices: 65594610--65594649 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
65594600 ATAATTTTAA
*
65594610 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
65594628 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
65594646 AAAA
1 AAAA
65594650 TAAATAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:65594824 original size:22 final size:23
Alignment explanation
Indices: 65594790--65594840 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
65594780 ACAATATCCA
65594790 AACAATAACAATAAAAT-AGTAGC
1 AACAATAACAATAAAATGA-TAGC
*
65594813 AACAA-AATAATAAAATGATAGC
1 AACAATAACAATAAAATGATAGC
65594835 AA-AATA
1 AACAATA
65594841 GGGAGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 2 0.08
22 17 0.68
23 6 0.24
ACGTcount: A:0.65, C:0.10, G:0.08, T:0.18
Consensus pattern (23 bp):
AACAATAACAATAAAATGATAGC
Found at i:65604634 original size:17 final size:18
Alignment explanation
Indices: 65604607--65604652 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
65604597 AAGCCAGTAT
65604607 TATAT-TATTATAAT-TG
1 TATATATATTATAATGTG
* *
65604623 TGTATATATTAT-GTGTG
1 TATATATATTATAATGTG
65604640 TATATATATTATA
1 TATATATATTATA
65604653 TGCATATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (18 bp):
TATATATATTATAATGTG
Found at i:65612311 original size:24 final size:26
Alignment explanation
Indices: 65612294--65612345 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
65612284 TATAATTTAT
65612294 TTATT-TTAAAAA-ACTATACATATA
1 TTATTATTAAAAATACTATACATATA
**
65612318 TTATTATTAAAAATACTATTTATATA
1 TTATTATTAAAAATACTATACATATA
65612344 TT
1 TT
65612346 TATATAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 7 0.29
26 12 0.50
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (26 bp):
TTATTATTAAAAATACTATACATATA
Found at i:65612425 original size:24 final size:24
Alignment explanation
Indices: 65612393--65612460 Score: 91
Period size: 25 Copynumber: 2.8 Consensus size: 24
65612383 TATATATTTA
*
65612393 TATTATATTTTATTATATAACATT
1 TATTATATTTTATTATATAACACT
**
65612417 TATTATATTTTTATTATATATTACT
1 TATTATA-TTTTATTATATAACACT
*
65612442 TATTATTTTTTATTATATA
1 TATTATATTTTATTATATA
65612461 TTATGTATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 19 0.49
25 20 0.51
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTATATTTTATTATATAACACT
Found at i:65612454 original size:35 final size:34
Alignment explanation
Indices: 65612370--65612524 Score: 91
Period size: 35 Copynumber: 4.4 Consensus size: 34
65612360 ATTTATCATA
* *
65612370 TATTATTTTCCTATATATATTTATATTATATTTTAT
1 TATTATTTT-TTAT-TATATTTATATTATATATTAT
*** *
65612406 TATATAACATTTATTATATTTTTATTATATATTACT
1 TAT-TATTTTTTATTATATTTATATTATATATTA-T
* **
65612442 TATTATTTTTTATTATATATTAT-GTATATCGTA-
1 TATTATTTTTTATTATAT-TTATATTATATATTAT
* * * *
65612475 TATTATCTATTA-TATTATTTATGTTTTATATTAT
1 TATTATTTTTTATTA-TATTTATATTATATATTAT
65612509 TCATTATATTATTTAT
1 T-ATTAT-TT-TTTAT
65612525 AATTTTAAAA
Statistics
Matches: 88, Mismatches: 21, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
32 6 0.07
33 19 0.22
34 1 0.01
35 42 0.48
36 14 0.16
37 6 0.07
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (34 bp):
TATTATTTTTTATTATATTTATATTATATATTAT
Found at i:65612461 original size:24 final size:24
Alignment explanation
Indices: 65612393--65612463 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
65612383 TATATATTTA
* ** *
65612393 TATTATATTTTATTATATAACATT
1 TATTATTTTTTATTATATATTACT
65612417 TATTATATTTTTATTATATATTACT
1 TATTAT-TTTTTATTATATATTACT
65612442 TATTATTTTTTATTATATATTA
1 TATTATTTTTTATTATATATTA
65612464 TGTATATCGT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 22 0.52
25 20 0.48
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTATTTTTTATTATATATTACT
Found at i:65612462 original size:7 final size:7
Alignment explanation
Indices: 65612383--65612517 Score: 56
Period size: 7 Copynumber: 19.7 Consensus size: 7
65612373 TATTTTCCTA
65612383 TATATAT
1 TATATAT
65612390 T-TATAT
1 TATATAT
*
65612396 TATATTT
1 TATATAT
65612403 TATTATAT
1 TA-TATAT
* *
65612411 AACAT-T
1 TATATAT
65612417 TATTATAT
1 TA-TATAT
*
65612425 T-TTTAT
1 TATATAT
65612431 TATATAT
1 TATATAT
65612438 TACT-TAT
1 TA-TATAT
65612445 TAT-T-T
1 TATATAT
65612450 T-T-TAT
1 TATATAT
65612455 TATATAT
1 TATATAT
65612462 TATGTATAT
1 TA--TATAT
**
65612471 CGTATAT
1 TATATAT
*
65612478 TATCTAT
1 TATATAT
65612485 TATATTAT
1 TATA-TAT
*
65612493 T-TATGT
1 TATATAT
*
65612499 TTTATAT
1 TATATAT
65612506 TAT-TCAT
1 TATAT-AT
65612513 TATAT
1 TATAT
65612518 TATTTATAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 29
0.68 0.12 0.20
Matches are distributed among these distances:
4 2 0.02
5 4 0.04
6 20 0.21
7 52 0.54
8 13 0.14
9 5 0.05
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (7 bp):
TATATAT
Found at i:65612492 original size:28 final size:28
Alignment explanation
Indices: 65612457--65612525 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
65612447 TTTTTTATTA
*
65612457 TATATTATGTATATCGTATATTA-TCTAT
1 TATATTATTTATATCGTATATTATTC-AT
* **
65612485 TATATTATTTATGTTTTATATTATTCAT
1 TATATTATTTATATCGTATATTATTCAT
65612513 TATATTATTTATA
1 TATATTATTTATA
65612526 ATTTTAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 33 0.94
29 2 0.06
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.59
Consensus pattern (28 bp):
TATATTATTTATATCGTATATTATTCAT
Found at i:65615535 original size:21 final size:20
Alignment explanation
Indices: 65615509--65615563 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
65615499 ATGTACCTAT
*
65615509 ATATATATTAAAGATATATAC
1 ATATATATTAAA-ACATATAC
*
65615530 ATATATAATAAAACATATAC
1 ATATATATTAAAACATATAC
65615550 -TA-ATATTAATAACA
1 ATATATATTAA-AACA
65615564 ATAATAAGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 6 0.20
19 6 0.20
20 7 0.23
21 11 0.37
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (20 bp):
ATATATATTAAAACATATAC
Found at i:65615650 original size:24 final size:23
Alignment explanation
Indices: 65615583--65615664 Score: 76
Period size: 23 Copynumber: 3.5 Consensus size: 23
65615573 ATAATATAAA
* * *
65615583 AAAATACATACATGAAATAGTAT
1 AAAATATATATATGAAATAATAT
* *
65615606 AAAAAATATATATAACTAATAATAT
1 AAAATATATATATGA--AATAATAT
*
65615631 AAATATATATATATGAAATAACAT
1 AAA-ATATATATATGAAATAATAT
65615655 AAAA-ATATAT
1 AAAATATATAT
65615665 GAATAGTATG
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
22 6 0.12
23 12 0.25
24 10 0.21
25 10 0.21
26 10 0.21
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (23 bp):
AAAATATATATATGAAATAATAT
Found at i:65615660 original size:26 final size:26
Alignment explanation
Indices: 65615573--65615664 Score: 91
Period size: 26 Copynumber: 3.7 Consensus size: 26
65615563 AATAATAAGG
* * *
65615573 ATAATATAAAAAAATACATACATGAA
1 ATAATATAAAAATATATATATATGAA
* ***
65615599 ATAGTATAAAAA-ATATATATAACTA
1 ATAATATAAAAATATATATATATGAA
65615624 ATAATAT--AAATATATATATATGAA
1 ATAATATAAAAATATATATATATGAA
*
65615648 ATAACATAAAAATATAT
1 ATAATATAAAAATATAT
65615665 GAATAGTATG
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
23 3 0.06
24 16 0.31
25 14 0.27
26 19 0.37
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.30
Consensus pattern (26 bp):
ATAATATAAAAATATATATATATGAA
Found at i:65615746 original size:26 final size:23
Alignment explanation
Indices: 65615689--65615766 Score: 69
Period size: 23 Copynumber: 3.5 Consensus size: 23
65615679 TTACAAATAT
*
65615689 ATACATAATATAAT-TATTTAAAA
1 ATACATAATATAATATA-TAAAAA
*
65615712 A-ACAT-A-AT-ATA-ATAAAAT
1 ATACATAATATAATATATAAAAA
65615730 ATACGAATAATATAATATATAAAAA
1 ATAC--ATAATATAATATATAAAAA
65615755 ATACATAATATA
1 ATACATAATATA
65615767 TGAAAAATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 16
0.70 0.05 0.25
Matches are distributed among these distances:
18 5 0.11
19 5 0.11
20 2 0.05
21 3 0.07
22 5 0.11
23 11 0.25
24 3 0.07
25 10 0.23
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.32
Consensus pattern (23 bp):
ATACATAATATAATATATAAAAA
Found at i:65615762 original size:18 final size:18
Alignment explanation
Indices: 65615741--65615803 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
65615731 TACGAATAAT
65615741 ATAATATATAAAAAATAC
1 ATAATATATAAAAAATAC
65615759 ATAATATATGAAAAATATA-
1 ATAATATAT-AAAAA-ATAC
* * *
65615778 ATATTTTAAAAAAAATAC
1 ATAATATATAAAAAATAC
*
65615796 CTAATATA
1 ATAATATA
65615804 AGAGTATTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
17 3 0.08
18 19 0.53
19 11 0.31
20 3 0.08
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (18 bp):
ATAATATATAAAAAATAC
Found at i:65615947 original size:12 final size:12
Alignment explanation
Indices: 65615930--65615957 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
65615920 GAAAGTAAAT
65615930 AATATAATAATA
1 AATATAATAATA
65615942 AATATAATAATA
1 AATATAATAATA
65615954 AATA
1 AATA
65615958 CATATGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATATAATAATA
Found at i:65616022 original size:22 final size:19
Alignment explanation
Indices: 65615995--65616047 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 19
65615985 AGACATTTAA
65615995 AATAAATATACATATATATAT
1 AATAAATATA-ATATATA-AT
65616016 AACTAAATATAATA-ATAAT
1 AA-TAAATATAATATATAAT
65616035 AAT-AATATAATAT
1 AATAAATATAATAT
65616048 TAGAATAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 9 0.30
18 1 0.03
19 4 0.13
20 3 0.10
21 5 0.17
22 8 0.27
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (19 bp):
AATAAATATAATATATAAT
Found at i:65616143 original size:24 final size:25
Alignment explanation
Indices: 65616102--65616157 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
65616092 ACATACATAT
*
65616102 ATAATAA-AACATACACTAAG-ATTA
1 ATAATAATAACATACACT-AGCAATA
*
65616126 ATAATAATAACA-ATACTAGCAATA
1 ATAATAATAACATACACTAGCAATA
65616150 ATAATAAT
1 ATAATAAT
65616158 TAGTAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.07
24 22 0.79
25 4 0.14
ACGTcount: A:0.59, C:0.11, G:0.04, T:0.27
Consensus pattern (25 bp):
ATAATAATAACATACACTAGCAATA
Found at i:65623333 original size:21 final size:20
Alignment explanation
Indices: 65623309--65623348 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
65623299 ATTTAATATA
*
65623309 TGAATTTTGAATTAGTAAATT
1 TGAATTGTGAATTA-TAAATT
*
65623330 TGAATTGTGATTTATAAAT
1 TGAATTGTGAATTATAAAT
65623349 GTGTATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (20 bp):
TGAATTGTGAATTATAAATT
Found at i:65624606 original size:3 final size:3
Alignment explanation
Indices: 65624600--65624631 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
65624590 ATTATTGAGT
*
65624600 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
65624632 GCATTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:65624646 original size:9 final size:10
Alignment explanation
Indices: 65624584--65624645 Score: 56
Period size: 12 Copynumber: 5.9 Consensus size: 10
65624574 TCCTATCATT
65624584 TTATTTATTA
1 TTATTTATTA
65624594 TTGAGTTTATTA
1 TT-A-TTTATTA
65624606 TTA-TTATTA
1 TTATTTATTA
65624615 TTATTATCATTA
1 TTATT-T-ATTA
*
65624627 TTATTGCATT-
1 TTATT-TATTA
65624637 TTATTTATT
1 TTATTTATT
65624646 TATTTGTACC
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
9 12 0.27
10 8 0.18
11 6 0.14
12 18 0.41
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (10 bp):
TTATTTATTA
Found at i:65639375 original size:3 final size:3
Alignment explanation
Indices: 65639369--65639400 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
65639359 ATTATTGAGT
*
65639369 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
65639401 GCATTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:65639415 original size:9 final size:10
Alignment explanation
Indices: 65639353--65639414 Score: 56
Period size: 12 Copynumber: 5.9 Consensus size: 10
65639343 TCCTATCATT
65639353 TTATTTATTA
1 TTATTTATTA
65639363 TTGAGTTTATTA
1 TT-A-TTTATTA
65639375 TTA-TTATTA
1 TTATTTATTA
65639384 TTATTATCATTA
1 TTATT-T-ATTA
*
65639396 TTATTGCATT-
1 TTATT-TATTA
65639406 TTATTTATT
1 TTATTTATT
65639415 TATTTGTACC
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
9 12 0.27
10 8 0.18
11 6 0.14
12 18 0.41
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (10 bp):
TTATTTATTA
Found at i:65643635 original size:22 final size:20
Alignment explanation
Indices: 65643586--65643645 Score: 50
Period size: 23 Copynumber: 2.8 Consensus size: 20
65643576 TTTTACACAT
65643586 TATTTA-TATATATATTTAAA
1 TATTTATTATATAT-TTTAAA
*
65643606 TTTATTATTATATATTTTGGAAA
1 TAT-TTATTATATATTTT--AAA
*
65643629 TATTTATGTATTTATTT
1 TATTTAT-TATATATTT
65643646 AATTTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 2 0.06
21 6 0.19
22 11 0.34
23 13 0.41
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TATTTATTATATATTTTAAA
Found at i:65643722 original size:51 final size:51
Alignment explanation
Indices: 65643649--65643748 Score: 123
Period size: 51 Copynumber: 2.0 Consensus size: 51
65643639 TTTATTTAAT
* * *
65643649 TTTTTTAAAATTAGGATCAAATTGAGA-ACATTTGTAAATTTTGAGGGCTAA
1 TTTTTTAAAATCAGGATCAAATTGAGATA-ATATGTAAAATTTGAGGGCTAA
* *
65643700 TTTTTTAAAATCATGA-CTAAATTGATATAATATGTAAAATTTGAGGGCT
1 TTTTTTAAAATCAGGATC-AAATTGAGATAATATGTAAAATTTGAGGGCT
65643749 GCATTTGTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 1 0.02
51 40 0.95
52 1 0.02
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.40
Consensus pattern (51 bp):
TTTTTTAAAATCAGGATCAAATTGAGATAATATGTAAAATTTGAGGGCTAA
Found at i:65644061 original size:13 final size:13
Alignment explanation
Indices: 65644043--65644105 Score: 74
Period size: 13 Copynumber: 4.8 Consensus size: 13
65644033 TTGATAATAT
65644043 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
65644056 TTTTGAAAAGTG-
1 TTTTGAAAAGTGC
* *
65644068 TTGTGAAAAAGTAC
1 TTTTG-AAAAGTGC
*
65644082 TTTTGAGAAGTGC
1 TTTTGAAAAGTGC
*
65644095 TTTTTAAAAGT
1 TTTTGAAAAGT
65644106 TTAGTTTAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
12 4 0.10
13 33 0.80
14 4 0.10
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.40
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:65644904 original size:21 final size:22
Alignment explanation
Indices: 65644878--65644932 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 22
65644868 AATAGTAGTG
65644878 GCGGTGAGATTAGG-TACTGTA
1 GCGGTGAGATTAGGATACTGTA
65644899 GCGGTGAGATT-GGATACTGTA
1 GCGGTGAGATTAGGATACTGTA
*
65644920 GCAGTGAGATTAG
1 GCGGTGAGATTAG
65644933 AAACAGCGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 2 0.06
21 28 0.90
22 1 0.03
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.27
Consensus pattern (22 bp):
GCGGTGAGATTAGGATACTGTA
Found at i:65645119 original size:18 final size:18
Alignment explanation
Indices: 65645096--65645229 Score: 87
Period size: 18 Copynumber: 6.9 Consensus size: 18
65645086 TTATTATTAA
65645096 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
65645114 ATATAATTTAAT-AAAAT
1 ATATAATTTAATAAAAAT
*
65645131 ATATGAATTTACT-AAAAT
1 ATAT-AATTTAATAAAAAT
65645149 -TATAATATATAATATTATAAA-
1 ATATAAT-T-TAATA--A-AAAT
*
65645170 ATATAATTTAAAATAATTATTATT
1 ATATAATTT--AATAA--A--AAT
*
65645194 AAGTATAATTTAACAAAAAT
1 -A-TATAATTTAATAAAAAT
65645214 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
65645230 TTCTTAGTAT
Statistics
Matches: 94, Mismatches: 6, Indels: 32
0.71 0.05 0.24
Matches are distributed among these distances:
16 3 0.03
17 13 0.14
18 41 0.44
19 1 0.01
20 4 0.04
21 4 0.04
22 14 0.15
23 1 0.01
24 4 0.04
25 1 0.01
26 8 0.09
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:65645167 original size:15 final size:15
Alignment explanation
Indices: 65645147--65645176 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
65645137 ATTTACTAAA
*
65645147 ATTATAATATATAAT
1 ATTATAAAATATAAT
65645162 ATTATAAAATATAAT
1 ATTATAAAATATAAT
65645177 TTAAAATAAT
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTATAAAATATAAT
Found at i:65645215 original size:59 final size:58
Alignment explanation
Indices: 65645152--65645350 Score: 185
Period size: 59 Copynumber: 3.3 Consensus size: 58
65645142 CTAAAATTAT
65645152 AATATATAATATT-ATAAAATATAATTTAAAATAATTATTATTAAGTATAATTTAACAAA
1 AATATATAAT-TTAATAAAATATAATTTAAAATAATTATTATTAA-TATAATTTAACAAA
* * * * * *
65645211 AATATATAATTTAATAAAAT-T--CTTAGTATTAAATATTCTT-ATATGAATTT-ACTAA
1 AATATATAATTTAATAAAATATAATTTA-AAATAATTATTATTAATAT-AATTTAACAAA
* *
65645266 AATCATAATATATAATACTATAAAATATAATTTTAAATAATTATTATTAAATATAATTTAACAAA
1 AAT-AT-ATA-AT-TTA--ATAAAATATAATTTAAAATAATTATTATT-AATATAATTTAACAAA
65645331 AATATATAATTTAATAAAAT
1 AATATATAATTTAATAAAAT
65645351 TCTTAGTATT
Statistics
Matches: 110, Mismatches: 15, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
55 10 0.09
56 11 0.10
57 13 0.12
58 5 0.05
59 26 0.24
61 9 0.08
62 3 0.03
63 13 0.12
64 9 0.08
65 11 0.10
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (58 bp):
AATATATAATTTAATAAAATATAATTTAAAATAATTATTATTAATATAATTTAACAAA
Found at i:65645263 original size:120 final size:120
Alignment explanation
Indices: 65645130--65645372 Score: 450
Period size: 120 Copynumber: 2.0 Consensus size: 120
65645120 TTTAATAAAA
* *
65645130 TATATGAATTTACTAAAATTATAATATATAATATTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
*
65645195 AGTATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
*
65645250 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTTAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
65645315 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
65645370 TAT
1 TAT
65645373 GATTGTATCA
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (120 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
Found at i:65645279 original size:61 final size:60
Alignment explanation
Indices: 65645180--65645372 Score: 178
Period size: 61 Copynumber: 3.2 Consensus size: 60
65645170 ATATAATTTA
* * **
65645180 AAATAATTATTATTAAGTATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATT
1 AAAT-ATTCTTATTAAATATAATAAAACAAAAATATATAATTTAATAAAATTCTTAGTATT
* * * * * * * *
65645241 AAATATTCTTATATGAATTTACTAAAATC-ATAATATATAATACT-ATAAAA-T-ATAATTTT
1 AAATATTCTTAT-TAAATATAATAAAA-CAAAAATATATAAT-TTAATAAAATTCTTAGTATT
* **
65645300 AAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATT
1 AAAT-ATTCTTATTAAATATAATAAAACAAAAATATATAATTTAATAAAATTCTTAGTATT
65645361 AAATATTCTTAT
1 AAATATTCTTAT
65645373 GATTGTATCA
Statistics
Matches: 100, Mismatches: 24, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
58 2 0.02
59 35 0.35
60 23 0.23
61 38 0.38
62 2 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (60 bp):
AAATATTCTTATTAAATATAATAAAACAAAAATATATAATTTAATAAAATTCTTAGTATT
Found at i:65648452 original size:6 final size:6
Alignment explanation
Indices: 65648437--65648471 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
65648427 GCAAACCAAT
*
65648437 GGGAAG GGGAAA GGGAAG GGGAAG GGGAAAG GGGA
1 GGGAAG GGGAAG GGGAAG GGGAAG GGG-AAG GGGA
65648472 GAAGAAGGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (6 bp):
GGGAAG
Found at i:65648478 original size:18 final size:18
Alignment explanation
Indices: 65648439--65648480 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
65648429 AAACCAATGG
**
65648439 GAAGGGGAAAGGGAAGGG
1 GAAGGGGAAAGGGAAGAA
*
65648457 GAAGGGGAAAGGGGAGAA
1 GAAGGGGAAAGGGAAGAA
65648475 GAAGGG
1 GAAGGG
65648481 TAACCAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (18 bp):
GAAGGGGAAAGGGAAGAA
Found at i:65652859 original size:6 final size:7
Alignment explanation
Indices: 65652814--65652845 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
65652804 TAAACACAAG
*
65652814 AAAACGT
1 AAAAAGT
65652821 AAAAAGT
1 AAAAAGT
65652828 AAAAAGT
1 AAAAAGT
65652835 AAAAAGT
1 AAAAAGT
65652842 AAAA
1 AAAA
65652846 GATGAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.72, C:0.03, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAAGT
Found at i:65653754 original size:16 final size:16
Alignment explanation
Indices: 65653724--65653771 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
65653714 GAAAATTAAT
65653724 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
65653739 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
65653756 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
65653771 A
1 A
65653772 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:65653770 original size:11 final size:11
Alignment explanation
Indices: 65653715--65653785 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
65653705 ATAGCTTAAG
*
65653715 AAAATTAATAT
1 AAAATTAAAAT
65653726 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
65653738 AATAA-T-AATT
1 AA-AATTAAAAT
*
65653748 AAAAAT-AAAT
1 AAAATTAAAAT
65653758 AAAATTAAAAT
1 AAAATTAAAAT
*
65653769 AAACTTAAAAT
1 AAAATTAAAAT
*
65653780 AGAATT
1 AAAATT
65653786 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:65664073 original size:16 final size:16
Alignment explanation
Indices: 65664043--65664090 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
65664033 GAAAATTAAT
65664043 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
65664058 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
65664075 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
65664090 A
1 A
65664091 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:65664089 original size:11 final size:11
Alignment explanation
Indices: 65664034--65664104 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
65664024 ATAGCTTAAG
*
65664034 AAAATTAATAT
1 AAAATTAAAAT
65664045 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
65664057 AATAA-T-AATT
1 AA-AATTAAAAT
*
65664067 AAAAAT-AAAT
1 AAAATTAAAAT
65664077 AAAATTAAAAT
1 AAAATTAAAAT
*
65664088 AAACTTAAAAT
1 AAAATTAAAAT
*
65664099 AGAATT
1 AAAATT
65664105 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:65669909 original size:37 final size:39
Alignment explanation
Indices: 65669835--65669918 Score: 109
Period size: 37 Copynumber: 2.2 Consensus size: 39
65669825 TTACAGCCTT
*
65669835 TTGTTGAAACCTTAGTCTAAGAAAACTTATCAACCTTCA
1 TTGTTGAAACCTTAGTCTAAGAAAACCTATCAACCTTCA
* **
65669874 TTGTTGAAACCTTAGT-TCA-AAAACCTATCTTCCTTCA
1 TTGTTGAAACCTTAGTCTAAGAAAACCTATCAACCTTCA
*
65669911 TTGCTGAA
1 TTGTTGAA
65669919 TATCACCTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 22 0.55
38 2 0.05
39 16 0.40
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (39 bp):
TTGTTGAAACCTTAGTCTAAGAAAACCTATCAACCTTCA
Found at i:65670403 original size:18 final size:18
Alignment explanation
Indices: 65670354--65670393 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
65670344 AATTGTTCCA
* *
65670354 GATTTGTAGGGATAGACT
1 GATTTCTAGGGATAAACT
65670372 GATTTCTAGGGATAAACT
1 GATTTCTAGGGATAAACT
65670390 GATT
1 GATT
65670394 CTTTGGGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.35
Consensus pattern (18 bp):
GATTTCTAGGGATAAACT
Found at i:65676072 original size:13 final size:13
Alignment explanation
Indices: 65676054--65676079 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65676044 TTTGTCATAT
65676054 TTAAAATAAAATA
1 TTAAAATAAAATA
65676067 TTAAAATAAAATA
1 TTAAAATAAAATA
65676080 GAATTCATTA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAAAATAAAATA
Found at i:65680035 original size:21 final size:20
Alignment explanation
Indices: 65680011--65680049 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
65680001 ATCATATTGG
*
65680011 GAGAACAGATGTTATCCTAAA
1 GAGAACA-ATGATATCCTAAA
*
65680032 GAGATCAATGATATCCTA
1 GAGAACAATGATATCCTA
65680050 TGAGGGTAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (20 bp):
GAGAACAATGATATCCTAAA
Found at i:65683197 original size:3 final size:3
Alignment explanation
Indices: 65683173--65683223 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
65683163 TGTCTAACAC
* *
65683173 TAT TAT TTT TAT T-T T-T TA- TAT TAT TAT TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
65683218 ATAT TA
1 -TAT TA
65683224 GTGTATATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 6 0.15
3 32 0.78
4 3 0.07
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:65683312 original size:69 final size:68
Alignment explanation
Indices: 65683232--65683455 Score: 240
Period size: 69 Copynumber: 3.2 Consensus size: 68
65683222 TAGTGTATAT
65683232 TTTTTATTATATACGTATATGTATTTATATTTATACATAGTATTATTTTTTAATTACTTTATTTT
1 TTTTTATTATATA-GTATATGTATTTATATTTATACATAGTATTATTTTTTAATTACTTTATTTT
65683297 AATA
65 AATA
* * * * * *
65683301 TTTTTATTATATTA-TATTTGCT-TTT-TTTTGTATTTCAATATTATTACTATTATT-ATTATTA
1 TTTTTATTATA-TAGTATATG-TATTTATATT-TA-TAC-ATAGTATTA-T-TTTTTAATTACT-
*
65683362 TTATTAGTATATA
58 TTATT-TTA-ATA
*
65683375 TTTTTATTATATATGTATATGTATTTATACTTATACATAGTATTATTTTTTAATTACTTTATTTT
1 TTTTTATTATATA-GTATATGTATTTATATTTATACATAGTATTATTTTTTAATTACTTTATTTT
65683440 AATA
65 AATA
65683444 TTTTTATTATAT
1 TTTTTATTATAT
65683456 TACATTTGCT
Statistics
Matches: 125, Mismatches: 15, Indels: 30
0.74 0.09 0.18
Matches are distributed among these distances:
67 3 0.02
68 10 0.08
69 29 0.23
70 12 0.10
71 15 0.12
72 15 0.12
73 12 0.10
74 17 0.14
75 10 0.08
76 2 0.02
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (68 bp):
TTTTTATTATATAGTATATGTATTTATATTTATACATAGTATTATTTTTTAATTACTTTATTTTA
ATA
Found at i:65683343 original size:139 final size:138
Alignment explanation
Indices: 65683197--65684141 Score: 678
Period size: 139 Copynumber: 6.8 Consensus size: 138
65683187 TTTATATTAT
65683197 TATTATTACTATTATTATTATATATTAGTGTATATTTTTTATTATATACGTATATGTATTTATAT
1 TATTATTACTATTATTATTAT-TATTAGTGTATATTTTTTATTATATACGTATATGTATTTATAT
*
65683262 TTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTTT
65 TTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTATTATTATATTATATTT-C-TTTT
65683327 TTTGTATTTCAA
128 TTTGTATTTC-A
* *
65683339 TATTATTACTATTATTATTATTATTATTAGTATATATTTTTATTATATATGTATATGTATTTATA
1 TATTATTACTATTATTATTATTATTAGT-GTATAT-TTTTTATTATATACGTATATGTATTTATA
* * *
65683404 CTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTACATTTGC--TT
64 TTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTATTATTATATTATATTT-CTTTT
65683467 TTTGTATTT--
128 TTTGTATTTCA
* * * * *
65683476 TA--A-TAATAATATTATTATTATTAGGGTATA-TTCTTATTATATAC--ATGTGTATATATATA
1 TATTATTACTATTATTATTATTATTAGTGTATATTTTTTATTATATACGTATATGTAT-T-TATA
* * * * *
65683535 TTTATATATAATACTA-TTTTTAATTACTTTATTTT-A-A-TATTATTATATTATGTTTATTTTT
64 TTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTATTATTATATTATATTT-CTTTT
65683596 TTTGTATTTCA
128 TTTGTATTTCA
* * * *
65683607 TTATTATTTCTAGTATTATTATTATTATTAATATTAGTATATGTTTTATTATATATGTATA--TA
1 -TATTA--T-TACTATTATTATTATTA-T--TAGT-GTATATTTTTTATTATATACGTATATGTA
65683670 --TATATTTAT--ATAGTA-T-TTTTTTAATTACTTTATTTTAATATTATTATTATATTATATTT
58 TTTATATTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTATTATTATATTATATTT
65683729 ACTTTTTTTGTATTTCATTA
123 -CTTTTTTTGTATTTC---A
* * * * * * *
65683749 CTATTGTTAGCATTATTATCATTATTAATATTAGTGTATGTTTTATTATATAGGTATA--TA--T
1 -TATTATTA-C--TATTATTATTATTATTAGT-GTATATTTTTTATTATATACGTATATGTATTT
* * * * * *
65683810 ATTTTTATATATAGTATTA--TTTTAATTACTTTATTTT-A-ATTATTATTATATCATGTTTATG
61 ATATTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTATTATTATATTATATTTCTT
65683871 TTTTTGTATTTCA
126 TTTTTGTATTTCA
*
65683884 TTATTATTTCTATTATTATTATTATTA-T-TATTATTATTATTATTAT-TA-GTATATGTTTATT
1 -TATTATTACTATTATTATTATTATTAGTGTA-TATT-TT-TTATTATATACGTATATG--TATT
* * * * ** *
65683945 ATACATGTATATATATATTTATATATAGCATTTTTTTAATTACTTTATTTTAATAATATTATTAT
60 -TATAT-T-TATACATA-GTAT-TAT---TTTTTAAT---TACTTTATTTTAATATTATTATTAT
65684010 ATTATATTTACTTTTTTTGTATTTCA
114 ATTATATTT-CTTTTTTTGTATTTCA
* ** * * * * * * * *
65684036 TTACTATTGTTAGTATTATTATCATTA-T-TAATATTAGTGTATGTTTTTA-TTATATG--TGTA
1 -TATTATTACTATTATTATTATTATTAGTGT-ATATT-TTTTAT-TATATACGTATATGTATTTA
*
65684096 TA--TATATATAGTATTA-TTTTTAATTACTTTATTTTAATATTATTAT
62 TATTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTATTAT
65684142 ATTATATGCC
Statistics
Matches: 663, Mismatches: 76, Indels: 135
0.76 0.09 0.15
Matches are distributed among these distances:
127 15 0.02
128 1 0.00
129 20 0.03
130 28 0.04
131 33 0.05
132 24 0.04
133 5 0.01
134 22 0.03
135 29 0.04
136 20 0.03
137 11 0.02
138 35 0.05
139 108 0.16
140 16 0.02
141 34 0.05
142 53 0.08
143 103 0.16
144 8 0.01
145 2 0.00
146 5 0.01
148 3 0.00
149 12 0.02
150 1 0.00
151 20 0.03
152 46 0.07
153 9 0.01
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (138 bp):
TATTATTACTATTATTATTATTATTAGTGTATATTTTTTATTATATACGTATATGTATTTATATT
TATACATAGTATTATTTTTTAATTACTTTATTTTAATATTATTATTATATTATATTTCTTTTTTT
GTATTTCA
Found at i:65683345 original size:3 final size:3
Alignment explanation
Indices: 65683339--65683384 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
65683329 TGTATTTCAA
* * *
65683339 TAT TAT TAC TAT TAT TAT TAT TAT TAT TAG TAT ATAT TTT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
65683385 ATATGTATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:65683946 original size:3 final size:3
Alignment explanation
Indices: 65683883--65683931 Score: 82
Period size: 3 Copynumber: 16.3 Consensus size: 3
65683873 TTTGTATTTC
65683883 ATT ATT ATT -TCT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
65683928 ATT A
1 ATT A
65683932 GTATATGTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 1 0.02
3 42 0.95
4 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:65683990 original size:290 final size:277
Alignment explanation
Indices: 65683486--65684143 Score: 929
Period size: 290 Copynumber: 2.3 Consensus size: 277
65683476 TAATAATAAT
* * * * *
65683486 ATTATTATTATTAGGGTATATTCTTATTATATACATGTGTATATATATATTTATATATAATACTA
1 ATTATTAATATTAGTGTATGTT-TTATTATAT--A-G-GTATATATAT-TTTATATATAGTATTA
* *
65683551 TTTTTAATTACTTTATTTTAATATTATTATATTATGTTTATTTTTTTTGTATTTCATTATTATTT
60 TTTTTAATTACTTTATTTTAATATTATTATATCATGTTTATTGTTTTTGTATTTCATTATTATTT
*
65683616 CTAGTATTATTATTATTATTAATATTAGTATATGTTTTATTATATATGTATATATATATTTATAT
125 CTAGTATTATTATTATTATTAATATTAGTATATGTTTTATTATACATGTATATATATATTTATAT
* *
65683681 AGTATTTTTTTAATTACTTTATTTTAATATTATTATTATATTATATTTACTTTTTTTGTATTTCA
190 AGCATTTTTTTAATTACTTTATTTTAATAATATTATTATATTATATTTACTTTTTTTGTATTTCA
65683746 TTACTATTGTTAGCATTATTATC
255 TTACTATTGTTAGCATTATTATC
65683769 ATTATTAATATTAGTGTATGTTTTATTATATAGGTATATATATTTTTATATATAGTATTA-TTTT
1 ATTATTAATATTAGTGTATGTTTTATTATATAGGTATATATA-TTTTATATATAGTATTATTTTT
*
65683833 AATTACTTTATTTTAATTATTATTATATCATGTTTA-TGTTTTTGTATTTCATTATTATTTCTAT
65 AATTACTTTATTTTAA-TATTATTATATCATGTTTATTGTTTTTGTATTTCATTATTATTTCTAG
*
65683897 TATTATTATTATTATTATTATTATTATTATTATTAGTATATGTTTATTATACATGTATATATATA
129 TATTATTATTATTATTA--A-TATTAGTA-TA-T-G----T-TTTATTATACATGTATATATATA
65683962 TTTATATATAGCATTTTTTTAATTACTTTATTTTAATAATATTATTATATTATATTTACTTTTTT
183 -TT-TATATAGCATTTTTTTAATTACTTTATTTTAATAATATTATTATATTATATTTACTTTTTT
*
65684027 TGTATTTCATTACTATTGTTAGTATTATTATC
246 TGTATTTCATTACTATTGTTAGCATTATTATC
*
65684059 ATTATTAATATTAGTGTATGTTTTTATTATAT--G--TGTATA---TATATATAGTATTATTTTT
1 ATTATTAATATTAGTGTATG-TTTTATTATATAGGTATATATATTTTATATATAGTATTATTTTT
65684117 AATTACTTTATTTTAATATTATTATAT
65 AATTACTTTATTTTAATATTATTATAT
65684144 TATATGCCTT
Statistics
Matches: 344, Mismatches: 14, Indels: 34
0.88 0.04 0.09
Matches are distributed among these distances:
277 63 0.18
278 41 0.12
279 3 0.01
280 8 0.02
281 2 0.01
282 10 0.03
283 45 0.13
284 20 0.06
287 6 0.02
288 22 0.06
289 3 0.01
290 110 0.32
291 11 0.03
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.60
Consensus pattern (277 bp):
ATTATTAATATTAGTGTATGTTTTATTATATAGGTATATATATTTTATATATAGTATTATTTTTA
ATTACTTTATTTTAATATTATTATATCATGTTTATTGTTTTTGTATTTCATTATTATTTCTAGTA
TTATTATTATTATTAATATTAGTATATGTTTTATTATACATGTATATATATATTTATATAGCATT
TTTTTAATTACTTTATTTTAATAATATTATTATATTATATTTACTTTTTTTGTATTTCATTACTA
TTGTTAGCATTATTATC
Found at i:65696500 original size:77 final size:77
Alignment explanation
Indices: 65696373--65696532 Score: 268
Period size: 77 Copynumber: 2.1 Consensus size: 77
65696363 TTTTCAATTT
* *
65696373 TATTTTTAATTTCTGTTTTTTCAAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGT
1 TATTTTCAATTTCTGTTTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGT
65696438 CACACGCCGAGG
66 CACACGCCGAGG
*
65696450 TATTTTCAATTTCTG-TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTCAATTTCTGTTTTTTC-AAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGG
*
65696514 TCACACGCTGAGG
65 TCACACGCCGAGG
65696527 TATTTT
1 TATTTT
65696533 AGTTTCTATC
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
76 6 0.08
77 72 0.92
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.36
Consensus pattern (77 bp):
TATTTTCAATTTCTGTTTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGT
CACACGCCGAGG
Found at i:65696657 original size:228 final size:229
Alignment explanation
Indices: 65696228--65696722 Score: 795
Period size: 228 Copynumber: 2.2 Consensus size: 229
65696218 TGATATTTTT
65696228 ATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGC
1 ATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGC
*
65696293 TGAGGTATTTTTAGTTTCTATCCACTCATATTGCGAGAGGTGAGTTGACCATCGGGCTACATGCG
65 TGAGGTATTTTTAGTTTCTATCCACTCATATTGCGAGAGGTGAGTTGACCATCGGGCCACATGCG
* *
65696358 AGATATTTTCAATTTTATTTTTAATTTCTGTTTTTTCAAAAAATTAACTCATATTGCAAGAGGTG
130 AGATATTTTCAATTTTATTTTTAATTTCTGTCTTTTCAAAAAATCAACTCATATTGCAAGAGGTG
* *
65696423 AGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCA
195 AGTTGAGCCTCAGGTCACACGCCGAGGTATCTTCA
65696458 ATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT
1 ATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT
*
65696523 GAGGTA-TTTTAGTTTCTATCCACTCATATTGCGAG-GGTGAGTTGACCCTCGGGCCACATGCCG
66 GAGGTATTTTTAGTTTCTATCCACTCATATTGCGAGAGGTGAGTTGACCATCGGGCCACATG-CG
* *
65696586 AGATATTTTCAATTTCTGTTTTTAATTT-T-TCTTTTCAAGAAAATCAACTCATATTGCGAGAGG
130 AGATATTTTCAATTT-TATTTTTAATTTCTGTCTTTTCAA-AAAATCAACTCATATTGCAAGAGG
*
65696649 TGAGTTGAGCCTCAGGTCACACGCTGAGGTATCTTCA
193 TGAGTTGAGCCTCAGGTCACACGCCGAGGTATCTTCA
* * * *
65696686 ATTTATG--CTTAAAAAAAATCAACTCATATTACGAGAG
1 ATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAG
65696723 TTGTAGTGGA
Statistics
Matches: 249, Mismatches: 13, Indels: 10
0.92 0.05 0.04
Matches are distributed among these distances:
226 27 0.11
227 31 0.12
228 109 0.44
229 69 0.28
230 13 0.05
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (229 bp):
ATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT
GAGGTATTTTTAGTTTCTATCCACTCATATTGCGAGAGGTGAGTTGACCATCGGGCCACATGCGA
GATATTTTCAATTTTATTTTTAATTTCTGTCTTTTCAAAAAATCAACTCATATTGCAAGAGGTGA
GTTGAGCCTCAGGTCACACGCCGAGGTATCTTCA
Found at i:65698285 original size:12 final size:13
Alignment explanation
Indices: 65698256--65698321 Score: 50
Period size: 12 Copynumber: 5.2 Consensus size: 13
65698246 TGTCTAACAC
65698256 TATTA-TTTTTAT
1 TATTATTTTTTAT
*
65698268 TTTTATTTTTTA-
1 TATTATTTTTTAT
*
65698280 TATTA-TTATTAT
1 TATTATTTTTTAT
* *
65698292 TATTATATATTAAT
1 TATTAT-TTTTTAT
65698306 GTA-TATTTTTTAT
1 -TATTATTTTTTAT
65698319 TAT
1 TAT
65698322 ATACGTATAT
Statistics
Matches: 40, Mismatches: 8, Indels: 11
0.68 0.14 0.19
Matches are distributed among these distances:
11 5 0.12
12 15 0.38
13 11 0.28
14 7 0.17
15 2 0.05
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (13 bp):
TATTATTTTTTAT
Found at i:65698426 original size:3 final size:3
Alignment explanation
Indices: 65698420--65699317 Score: 103
Period size: 3 Copynumber: 297.7 Consensus size: 3
65698410 TGTATTTCAA
*
65698420 TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* * *
65698469 GTA- TAT GTAT T-T ATACT TA- TACA TAG TAT TAT T-T T-T TAAT TAC
1 -TAT TAT -TAT TAT -TA-T TAT TA-T TAT TAT TAT TAT TAT T-AT TAT
* * * * *
65698512 T-T TAT T-T TAA TAT TTT TAT TA- TAT TA- TATT TCT TTT TTT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
* * * * *
65698553 TAT T-T CAA TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAA TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
65698600 TAT ATAT TTT TAT TAT ATAT GTA- TAT GTAT T-T ATAT T-T ATACA GAG
1 TAT -TAT TAT TAT TAT -TAT -TAT TAT -TAT TAT -TAT TAT -TA-T TAT
* * *
65698646 TAT TAT T-T T-T TAAT TAC T-T TATT TAA TAT TTT TAT TA- TAT TA-
1 TAT TAT TAT TAT T-AT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * *
65698688 CAT T-T TCT T-T T-T GTAT T-T CAA TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
65698730 TAT TAGT GTA- TAT TCT TAT TAT ATACG TA- TAT ATAT T-T ATAT ATAA
1 TAT TA-T -TAT TAT TAT TAT TAT -TA-T TAT TAT -TAT TAT -TAT -TAT
* * * * * *
65698776 TAC TAT TTT TAAT TAC T-T TAT T-T TAA CAT TAT TAT TAT TTT TACT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * ** * *
65698821 T-T TTT GTAT T-T CAT TAT TAT TGC TAG TAT TAT TAT TAT TAT TAA
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
65698865 TAT TAGT GTAT GT-T T-T TAT TAT ATAGG TAT ATAT ATAT TTT TA- CAT
1 TAT TA-T -TAT -TAT TAT TAT TAT -TA-T TAT -TAT -TAT TAT TAT TAT
* * * *
65698911 ATAG TAT TAT TTT TAAT TAC T-T TAT T-T TAA TAT TAT TA- TAT TAT
1 -TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
65698955 GT-T TAT TTT TTT GTAT T-T CAT TAT TAT T-T CTAG TAT TAT TAT TAT
1 -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * * *
65699000 TAA TAA TAT TAG TA- TAT GTTT TAT TAT ATAT GTAT ATAT ATAT T-T
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT -TAT -TAT -TAT TAT
* * * *
65699045 T-T TA- TAT ATAG TAT T-T TTT TAAT TAC T-T TAT T-T TAA TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
65699087 TA- TAT TA- TATT TACT TTT TTT GTAT T-T CAT TAC TAT TGT TAG CAT
1 TAT TAT TAT TA-T TA-T TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
65699132 TAT TAT CAT TAT TAA TATT TGT GTAT GT-T T-T TAT TAT ATAGG TAT
1 TAT TAT TAT TAT TAT TA-T TAT -TAT -TAT TAT TAT TAT -TA-T TAT
* * * * *
65699177 ATAT ATAT T-T TTT TAT ATAG TAT TAT TTT TAAT TAC T-T TAT T-T TAA
1 -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
* * *
65699223 TAT TAT TAT TA- TAT TAT GT-T TAT CTTT TTT GTAT T-T CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT -TAT TAT -TAT TAT TAT TAT TAT
* *
65699268 T-T CTAG TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAA
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
65699313 TAT TA
1 TAT TA
65699318 GTATATGTTT
Statistics
Matches: 649, Mismatches: 142, Indels: 208
0.65 0.14 0.21
Matches are distributed among these distances:
2 91 0.14
3 430 0.66
4 123 0.19
5 5 0.01
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:65698590 original size:141 final size:140
Alignment explanation
Indices: 65698280--65699540 Score: 1059
Period size: 141 Copynumber: 8.8 Consensus size: 140
65698270 TTATTTTTTA
* *
65698280 TATTATTATTATTATTATATATTAATGTA-TATT-TT-TTATTATATACGTATATGTATTTATAT
1 TATTACTATTATTATTAT-TATT-AT-TATTATTATTATTATTATATATGTATATGTATTTATAT
65698342 TTATACATAGTATTATTTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTT
63 TTATACATAGTATTA-TTTTTTAATTACTTTATTTTAATA-TTTTATTATATTATATTT-CTTTT
65698407 TTTTGTATTTCAATAT
125 TTTTGTATTTCAATAT
*
65698423 TATTACTATTATTATTATTATTATTATTATTATTATTATTATATATGTATATGTATTTATACTTA
1 TATTACTATTATTATTATTATTATTATTATTATTATTATTATATATGTATATGTATTTATATTTA
*
65698488 TACATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTCTTTTTTTTA
66 TACATAGTATTATTTTTTAATTACTTTATTTTAATA-TTTTATTATATTATATTTCTTTTTTTTG
65698553 TATTTCAATAT
130 TATTTCAATAT
65698564 TATTACTATTATTATTATTATTATTATTAATATTAGTATATATTTTTATTATATATGTATATGTA
1 TATTACTATTATTATTATTATTATTA-T--TA-T--TAT-TA---TTATTATATATGTATATGTA
* *
65698629 TTTATATTTATACAGAGTATTATTTTTTAATTACTTTA-TTTAATATTTTTATTATATTACA-TT
56 TTTATATTTATACATAGTATTATTTTTTAATTACTTTATTTTAATA-TTTTATTATATTATATTT
*
65698692 -TTCTTTTTGTATTTCAATAT
120 CTTTTTTTTGTATTTCAATAT
* * * * * *
65698712 TATTATTATTATTATTATTATTAGT-GTA-TATTCTTATTATATACGTATATATATTTATA--TA
1 TATTACTATTATTATTATTATTATTATTATTATTATTATTATATATGTATATGTATTTATATTTA
* * *
65698773 T--A-A-TACTA-TTTTTAATTACTTTATTTTAACA--TTA-T-TATTAT-TTT-TACTTTTTTG
66 TACATAGTATTATTTTTTAATTACTTTATTTTAATATTTTATTATATTATATTTCT-TTTTTTTG
*
65698827 TATTTCATTAT
130 TATTTCAATAT
* * * * * *
65698838 TATTGCTAGTATTATTATTATTATTAATATTAGTGTATGT-TTTTAT-TATATAGGTATATATAT
1 TATTACTATTATTATTATTATTATTATTATTA-T-TAT-TATTATATATGTATATGTAT-T-TAT
* * *
65698901 ATTTTTACATATAGTATTA-TTTTTAATTACTTTATTTTAATA--TTATTATATTATGTTT-ATT
61 ATTTATAC--ATAGTATTATTTTTTAATTACTTTATTTTAATATTTTATTATATTATATTTCTTT
*
65698962 TTTTTGTATTTCATTAT
124 TTTTTGTATTTCAATAT
* * * *
65698979 TATTTCTAGTATTATTATTATTAATAATATTAGTATATGTTTTATTATATATGTATATATATATT
1 TATTACTATTATTATTATTATT-AT--TATTA-T-TAT-TATTATTATATATGTATATGTAT-TT
*
65699044 -T-TTTATATATAGTA-T-TTTTTTAATTACTTTATTTTAATA--TTATTATATTATATTTAC-T
59 ATATTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTTTATTATATTATATTT-CTT
65699102 TTTTTTGTATTTCATTACTAT
123 TTTTTTGTATTTCA--A-TAT
* * * * * * *
65699123 TGTTAGC-ATTATTATCATTATTAATATTTGTGTATGTTTTTATTATATAGGTATATATATATT-
1 TATTA-CTATTATTATTATTATTATTA-TTAT-TA--TTATTATTATATATGTATATGTAT-TTA
* * * *
65699186 T-TTT-TATATAGTATTA-TTTTTAATTACTTTATTTTAATATTATTATTATATTATGTTTATCT
60 TATTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATT-TTATTATATTATATTTCTTT
*
65699248 TTTTTGTATTTCATTAT
124 TTTTTGTATTTCAATAT
*
65699265 TATTTCTAGTATTATTATTATTATTATTATTATTATTATTATTATTAATATTAGTATATGTTTAT
1 TA--T-TACTATTATTATTATTATTATTATTATTATTATTATTA-T-ATA-T-GTATATG--TAT
* * *
65699330 TATATATGTATATATATTTATATATAGTATTTTTTTAATTACTTTATTTTAATA--TTATTATAT
57 T-TATAT-T-TATACA--TA-GTAT--TATTTTTTAA-TTACTTTATTTTAATATTTTATTATAT
65699393 TATATTTAC-TTTTTTTGTATTTCATTACTAT
113 TATATTT-CTTTTTTTTGTATTTCA--A-TAT
* * * * * *
65699424 TGTTAGTATTATTATCATTATTAATATTAGTGTATGT-TT-TTATTATATGTGTA--TATATATA
1 TATTACTATTATTATTATTATTATTATTA-T-TAT-TATTATTA-TATATGTATATGTATTTATA
*
65699485 TTTATATATAGTATTA-TTTTTAATTACTTTATTTTAATATTATTATTATATTATAT
62 TTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATT-TTATTATATTATAT
65699541 GCCTTCCTTT
Statistics
Matches: 947, Mismatches: 81, Indels: 180
0.78 0.07 0.15
Matches are distributed among these distances:
125 8 0.01
126 38 0.04
127 5 0.01
128 2 0.00
129 23 0.02
130 18 0.02
131 6 0.01
132 1 0.00
133 2 0.00
134 3 0.00
136 24 0.03
137 1 0.00
138 1 0.00
139 30 0.03
140 61 0.06
141 146 0.15
142 117 0.12
143 83 0.09
144 36 0.04
145 69 0.07
146 13 0.01
147 13 0.01
148 45 0.05
149 8 0.01
150 26 0.03
151 57 0.06
152 4 0.00
154 6 0.01
155 4 0.00
156 56 0.06
157 9 0.01
158 11 0.01
159 21 0.02
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.61
Consensus pattern (140 bp):
TATTACTATTATTATTATTATTATTATTATTATTATTATTATATATGTATATGTATTTATATTTA
TACATAGTATTATTTTTTAATTACTTTATTTTAATATTTTATTATATTATATTTCTTTTTTTTGT
ATTTCAATAT
Found at i:65698648 original size:151 final size:151
Alignment explanation
Indices: 65698280--65698734 Score: 704
Period size: 151 Copynumber: 3.1 Consensus size: 151
65698270 TTATTTTTTA
*
65698280 TATTATTATTATTATTATATATTAATGTATAT-TTTTTATTATATACGTATATGTATTTATATTT
1 TATTATTATTATTATTA-ATATT-A-GTATATATTTTTATTATATATGTATATGTATTTATATTT
65698344 ATACATAGTATTATTTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTTTT
63 ATACATAGTATTA-TTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTT-CTTTTTT
65698409 TTGTATTTCAATATTATTACTATTAT
126 TTGTATTTCAATATTATTACTATTAT
*
65698435 TATTATTATTATTA-T--TA-T--TAT-TA---TTATTATATATGTATATGTATTTATACTTATA
1 TATTATTATTATTATTAATATTAGTATATATTTTTATTATATATGTATATGTATTTATATTTATA
*
65698490 CATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTCTTTTTTTTATA
66 CATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTCTTTTTTTTGTA
65698555 TTTCAATATTATTACTATTAT
131 TTTCAATATTATTACTATTAT
65698576 TATTATTATTATTATTAATATTAGTATATATTTTTATTATATATGTATATGTATTTATATTTATA
1 TATTATTATTATTATTAATATTAGTATATATTTTTATTATATATGTATATGTATTTATATTTATA
* * *
65698641 CAGAGTATTATTTTTTAATTACTTTA-TTTAATATTTTTATTATATTACA-TT-TTCTTTTTGTA
66 CATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTCTTTTTTTTGTA
*
65698703 TTTCAATATTATTATTATTAT
131 TTTCAATATTATTACTATTAT
65698724 TATTATTATTA
1 TATTATTATTA
65698735 GTGTATATTC
Statistics
Matches: 280, Mismatches: 9, Indels: 29
0.88 0.03 0.09
Matches are distributed among these distances:
141 46 0.16
142 44 0.16
143 40 0.14
144 2 0.01
145 2 0.01
146 3 0.01
147 3 0.01
148 42 0.15
149 2 0.01
150 23 0.08
151 58 0.21
154 1 0.00
155 14 0.05
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (151 bp):
TATTATTATTATTATTAATATTAGTATATATTTTTATTATATATGTATATGTATTTATATTTATA
CATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTCTTTTTTTTGTA
TTTCAATATTATTACTATTAT
Found at i:65699133 original size:156 final size:155
Alignment explanation
Indices: 65698973--65699530 Score: 527
Period size: 156 Copynumber: 3.7 Consensus size: 155
65698963 TTTTGTATTT
65698973 CATTATTATTTCTAGTATTATTATTATTAATAATATTAGTATATGTTTTATTATATATGTATATA
1 CATTATTATTTCTA-TATTATTATTATTAATAATATTAGTATATGTTTTATTATATATGTATATA
65699038 TATATTTTTTATATATAGTATTTTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTT
65 TATATTTTTTATATATAGTATTTTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTT
65699103 TTTTTGTATTTCATTACTATTGTTAG
130 TTTTTGTATTTCATTACTATTGTTAG
* *
65699129 CATTATTA--TC---------ATTATTAAT-AT-TT-GTGTATGTTTTTATTATATAGGTATATA
1 CATTATTATTTCTATATTATTATTATTAATAATATTAGTATATG-TTTTATTATATA--TGTATA
* * *
65699180 TATATTTTTTTA---TATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTATGT
63 TATATATTTTTTATATATAGTATT-TTTTTAATTACTTTATTTT-A-A-TATTATTATATTATAT
*
65699242 TTA-TCTTTTTTGTATTTCATTATTATT-TCTAG
124 TTACT-TTTTTTGTATTTCATTACTATTGT-TAG
* *
65699274 TATTATTATTATTATTATTATTATTATTATTATTATTAATATTAGTATATG-TTTATTATATATG
1 CATTATTA-T-TT-CTA-TATTATTATTATTA--A-TAATATTAGTATATGTTTTATTATATATG
65699338 --TATATATA---TTTATATATAGTATTTTTTTAATTACTTTATTTTAATATTATTATATTATAT
59 TATATATATATTTTTTATATATAGTATTTTTTTAATTACTTTATTTTAATATTATTATATTATAT
65699398 TTACTTTTTTTGTATTTCATTACTATTGTTAG
124 TTACTTTTTTTGTATTTCATTACTATTGTTAG
* * * *
65699430 TATTATTA--TC---ATTATTA--A-T-AT--TAGT-GTATGT-TTTTATTATATGTGTATATAT
1 CATTATTATTTCTATATTATTATTATTAATAATATTAGTATATGTTTTATTATATATG--TATAT
65699482 ATA-----TTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTAT
64 ATATATTTTTTATATATAGTATT-TTTTTAATTACTTTATTTTAATATTATTAT
65699531 TATATTATAT
Statistics
Matches: 343, Mismatches: 18, Indels: 98
0.75 0.04 0.21
Matches are distributed among these distances:
137 17 0.05
138 3 0.01
139 15 0.04
140 31 0.09
141 22 0.06
142 33 0.10
143 3 0.01
144 28 0.08
145 50 0.15
147 7 0.02
149 1 0.00
152 1 0.00
154 2 0.01
156 58 0.17
157 5 0.01
158 1 0.00
159 19 0.06
160 23 0.07
162 2 0.01
163 1 0.00
164 13 0.04
165 2 0.01
166 6 0.02
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (155 bp):
CATTATTATTTCTATATTATTATTATTAATAATATTAGTATATGTTTTATTATATATGTATATAT
ATATTTTTTATATATAGTATTTTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTT
TTTTGTATTTCATTACTATTGTTAG
Found at i:65699193 original size:14 final size:16
Alignment explanation
Indices: 65699176--65699207 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
65699166 TATATAGGTA
65699176 TATATA-TATT-TTTT
1 TATATAGTATTATTTT
65699190 TATATAGTATTATTTT
1 TATATAGTATTATTTT
65699206 TA
1 TA
65699208 ATTACTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 4 0.25
16 6 0.38
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
TATATAGTATTATTTT
Found at i:65699370 original size:301 final size:302
Alignment explanation
Indices: 65698974--65699538 Score: 987
Period size: 301 Copynumber: 1.9 Consensus size: 302
65698964 TTTGTATTTC
65698974 ATTATTATTTCTAGTATTATTATTATTAATAATATTAGTATATGTTTTATTATATATGTATATAT
1 ATTATTATTTCTAGTATTATTATTATTAATAATATTAGTATATGTTTTATTATATATG-ATATAT
65699039 ATATTTTTTATATATAGTATTTTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTT
65 ATA--TTTTATATATAGTATTTTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTT
*
65699104 TTTTGTATTTCATTACTATTGTTAGCATTATTATCATTATTAATATTTGTGTATGTTTTTATTAT
128 TTTTGTATTTCATTACTATTGTTAGCATTATTATCATTATTAATATTAGTGTATGTTTTTATTAT
*
65699169 ATAG-GTATATATATATTTTTTTATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATT
193 AT-GTGTATATATATA--TTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATT
65699233 ATATTATGTTTATCTTTTTTGTATTTCATTATTATTTCTAGTATTATT
255 ATATTATGTTTATCTTTTTTGTATTTCATTATTATTTCTAGTATTATT
* *
65699281 ATTATTATTAT-TATTATTATTATTATTATTAATATTAGTATATG-TTTATTATATATG-TATAT
1 ATTATTATT-TCTAGTATTATTATTATTAATAATATTAGTATATGTTTTATTATATATGATATAT
65699343 ATA-TTTATATATAGTATTTTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTT
65 ATATTTTATATATAGTATTTTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTT
*
65699407 TTGTATTTCATTACTATTGTTAGTATTATTATCATTATTAATATTAGTGTATGTTTTTATTATAT
130 TTGTATTTCATTACTATTGTTAGCATTATTATCATTATTAATATTAGTGTATGTTTTTATTATAT
65699472 GTGTATATATATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATT
195 GTGTATATATATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATT
65699537 AT
260 AT
65699539 ATGCCTTCCT
Statistics
Matches: 251, Mismatches: 5, Indels: 12
0.94 0.02 0.04
Matches are distributed among these distances:
299 53 0.21
300 1 0.00
301 135 0.54
304 8 0.03
306 13 0.05
307 40 0.16
308 1 0.00
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (302 bp):
ATTATTATTTCTAGTATTATTATTATTAATAATATTAGTATATGTTTTATTATATATGATATATA
TATTTTATATATAGTATTTTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTTT
TGTATTTCATTACTATTGTTAGCATTATTATCATTATTAATATTAGTGTATGTTTTTATTATATG
TGTATATATATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTA
TGTTTATCTTTTTTGTATTTCATTATTATTTCTAGTATTATT
Found at i:65699397 original size:45 final size:44
Alignment explanation
Indices: 65699347--65699530 Score: 121
Period size: 45 Copynumber: 4.0 Consensus size: 44
65699337 GTATATATAT
65699347 TTATATATAGTATTTTTTTAATTACTTTATTTTAATATTATTATA
1 TTATATATAGTATTTTTTT-ATTACTTTATTTTAATATTATTATA
* * * *
65699392 TTATATTTACT-TTTTTTGTATTTCATTACTATTGTTAGTATTATTATCA
1 TTATATATAGTATTTTTT-TATTAC-TT--TATT-TTAATATTATTAT-A
* *
65699441 TTATTAATATTAGTGTATGTTTTTATTA---TATGTGT-ATA-TA-TATA
1 TTA-T-ATA-TA--GTATTTTTTTATTACTTTAT-TTTAATATTATTATA
65699485 TTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTAT
1 -TTATATATAGTATT-TTTTT-ATTACTTTATTTTAATATTATTAT
65699531 TATATTATAT
Statistics
Matches: 105, Mismatches: 12, Indels: 42
0.66 0.08 0.26
Matches are distributed among these distances:
40 4 0.04
41 5 0.05
42 6 0.06
43 3 0.03
44 14 0.13
45 24 0.23
46 4 0.04
47 9 0.09
48 16 0.15
49 5 0.05
50 1 0.01
51 2 0.02
52 2 0.02
54 5 0.05
55 5 0.05
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.61
Consensus pattern (44 bp):
TTATATATAGTATTTTTTTATTACTTTATTTTAATATTATTATA
Found at i:65699434 original size:129 final size:136
Alignment explanation
Indices: 65699284--65699530 Score: 385
Period size: 140 Copynumber: 1.8 Consensus size: 136
65699274 TATTATTATT
* *
65699284 ATTATTATTATTA-TTATTATTATTATTAATATTAGTATATG-TTTATTATATATG-TATATATA
1 ATTACTATTATTAGTTATTATCATTATTAATATTAGTATATGTTTTATTATATATGATATATATA
65699346 TTTATATATAGTATT-TTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTTTTG
66 TTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTTTTG
65699410 TATTTC
131 TATTTC
* * *
65699416 ATTACTATTGTTAGTATTATTATCATTATTAATATTAGTGTATGTTTTTATTATATGTGTATATA
1 ATTACTATTATTAG--TTATTATCATTATTAATATTAGTATATG-TTTTATTATATATG-ATATA
65699481 TATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTAT
62 TATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTAT
65699531 TATATTATAT
Statistics
Matches: 102, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
132 11 0.11
135 26 0.25
137 12 0.12
139 23 0.23
140 30 0.29
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.60
Consensus pattern (136 bp):
ATTACTATTATTAGTTATTATCATTATTAATATTAGTATATGTTTTATTATATATGATATATATA
TTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTTTTG
TATTTC
Found at i:65699452 original size:135 final size:138
Alignment explanation
Indices: 65699281--65699530 Score: 407
Period size: 135 Copynumber: 1.8 Consensus size: 138
65699271 TAGTATTATT
* * *
65699281 ATTATTATTATTATTATTATTATTATTATTAATATTAGTATATG-TTTATTATATATG-TATATA
1 ATTACTATTATTAGTATTATTATCATTATTAATATTAGTATATGTTTTATTATATATGATATATA
65699344 TATTTATATATAGTATT-TTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTTT
66 TATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTTT
65699408 TGTATTTC
131 TGTATTTC
* * *
65699416 ATTACTATTGTTAGTATTATTATCATTATTAATATTAGTGTATGTTTTTATTATATGTGTATATA
1 ATTACTATTATTAGTATTATTATCATTATTAATATTAGTATATG-TTTTATTATATATG-ATATA
65699481 TATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTAT
64 TATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTAT
65699531 TATATTATAT
Statistics
Matches: 104, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
135 39 0.38
137 12 0.12
139 23 0.22
140 30 0.29
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.60
Consensus pattern (138 bp):
ATTACTATTATTAGTATTATTATCATTATTAATATTAGTATATGTTTTATTATATATGATATATA
TATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTTT
TGTATTTC
Found at i:65699577 original size:141 final size:134
Alignment explanation
Indices: 65699288--65699579 Score: 360
Period size: 140 Copynumber: 2.1 Consensus size: 134
65699278 ATTATTATTA
* *
65699288 TTATTATTATTATTATTATTATTAATATTAGTATATGTTTATTATATATGTATATATATTTATAT
1 TTATTGTT-TTATTATCATTATTAATATTAGTATATGTTTATTATATATGTATATATATTTATAT
65699353 ATAGTATTTTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTTTTGTATTTCAT
65 ATAGTATTTTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTTTTGTATTTCAT
65699418 TACTAT
130 TA-TAT
* * * *
65699424 TGT-TAGTATTATTATCATTATTAATATTAGTGTATGTTTTTATTATATGTGTATATATATATTT
1 T-TATTGTTTTATTATCATTATTAATATTAGTATATG--TTTATTATATATG--TATATATATTT
65699488 ATATATAGTATTATTTTTAATTACTTTATTTTAATATTA-T-TATTATATTATATGCCTTCCTTT
61 ATATATAGTATT-TTTTTAATTACTTTATTTTAATATTATTATATTATATT-TA---CTT--TTT
*
65699551 TTGTGTTT-ATT-TAT
119 TTGTATTTCATTATAT
65699565 TTATTGTTTTATTAT
1 TTATTGTTTTATTAT
65699580 TAACTAATTT
Statistics
Matches: 134, Mismatches: 9, Indels: 21
0.82 0.05 0.13
Matches are distributed among these distances:
135 26 0.19
136 3 0.02
137 13 0.10
138 9 0.07
139 26 0.19
140 27 0.20
141 14 0.10
142 3 0.02
143 3 0.02
144 10 0.07
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.61
Consensus pattern (134 bp):
TTATTGTTTTATTATCATTATTAATATTAGTATATGTTTATTATATATGTATATATATTTATATA
TAGTATTTTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTTTTGTATTTCATT
ATAT
Found at i:65699606 original size:301 final size:303
Alignment explanation
Indices: 65698988--65699613 Score: 955
Period size: 301 Copynumber: 2.1 Consensus size: 303
65698978 TTATTTCTAG
*
65698988 TATTATTATTATTAATAATATTAGTATATGTTTTATTATATATGTATATATATATTTTTTATATA
1 TATTATTATTATTATTAATATTAGTATATGTTTTATTATATATG-ATATATATA--TTTTATATA
65699053 TAGTATTTTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTTTTGTATTTCATT
63 TAGTATTTTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTTTTGTATTTCATT
*
65699118 ACTATTGTTAGCATTATTATCATTATTAATATTTGTGTATGTTTTTATTATATAGGTATATATAT
128 ACTATTGTTAGCATTATTATCATTATTAATATTAGTGTATGTTTTTATTATATAGGTATATATAT
* ** *
65699183 ATTTTTTTATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTATGTTTATCT
193 A-TTTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTATGCCTATCC
* * **
65699248 TTTTTGTATTTCATTATTATTTCTAGTATTATTATTATTATTATTAT
257 TTTTTGTATTTCATTATTATTTATAGTATTATTATTATAATTAGCAT
65699295 TATTATTATTATTATTAATATTAGTATATG-TTTATTATATATG-TATATATA-TTTATATATAG
1 TATTATTATTATTATTAATATTAGTATATGTTTTATTATATATGATATATATATTTTATATATAG
65699357 TATTTTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTTTTGTATTTCATTACT
66 TATTTTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTTTTGTATTTCATTACT
*
65699422 ATTGTTAGTATTATTATCATTATTAATATTAGTGTATGTTTTTATTATAT-GTGTATATATATA-
131 ATTGTTAGCATTATTATCATTATTAATATTAGTGTATGTTTTTATTATATAG-GTATATATATAT
65699485 TTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTATATGCCT-TCCT
195 TTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATA-T-TATGCCTATCCT
* * *
65699549 TTTTGTGTTT-A-T-TTATTTATTGTTTTATTATTAACTAATTTAGCAT
258 TTTTGTATTTCATTATTATTTATAGTATTATTATT-A-TAA-TTAGCAT
65699595 TATTAATTATTATTTATTA
1 TATT-ATTATTA-TTATTA
65699614 TTGTCCTTGT
Statistics
Matches: 297, Mismatches: 14, Indels: 21
0.89 0.04 0.06
Matches are distributed among these distances:
297 17 0.06
298 2 0.01
299 52 0.18
300 23 0.08
301 147 0.49
302 6 0.02
304 8 0.03
306 13 0.04
307 29 0.10
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (303 bp):
TATTATTATTATTATTAATATTAGTATATGTTTTATTATATATGATATATATATTTTATATATAG
TATTTTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTTTTGTATTTCATTACT
ATTGTTAGCATTATTATCATTATTAATATTAGTGTATGTTTTTATTATATAGGTATATATATATT
TTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTATGCCTATCCTTTT
TGTATTTCATTATTATTTATAGTATTATTATTATAATTAGCAT
Found at i:65701220 original size:36 final size:36
Alignment explanation
Indices: 65701173--65701243 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
65701163 TGCACTCGTT
65701173 AATCCGCAAGGTTTGATCGCATCCACAAATCAAGTG
1 AATCCGCAAGGTTTGATCGCATCCACAAATCAAGTG
65701209 AATCCGCAAGGTTTGATCGCATCCACAAATCAAGT
1 AATCCGCAAGGTTTGATCGCATCCACAAATCAAGT
65701244 CTCCCAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (36 bp):
AATCCGCAAGGTTTGATCGCATCCACAAATCAAGTG
Found at i:65707272 original size:26 final size:26
Alignment explanation
Indices: 65707221--65707272 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
65707211 ATTCTTCAAC
*
65707221 ATTTATATTTTATTAATTTGGCTTTT
1 ATTTATATTTTATTAATTTGGATTTT
65707247 ATTTAT-TTTTATTTAAATTT-GATTTT
1 ATTTATATTTTA-TT-AATTTGGATTTT
65707273 TAATTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 5 0.22
26 13 0.57
27 5 0.22
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (26 bp):
ATTTATATTTTATTAATTTGGATTTT
Found at i:65707294 original size:31 final size:31
Alignment explanation
Indices: 65707259--65707327 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
65707249 TTATTTTTAT
* * **
65707259 TTAAATTTGATTTTTAATTTTTTAAAAAGAG
1 TTAAATTTGACTATTAACATTTTAAAAAGAG
65707290 TTAAATTTGACTATTAACATTTTAAAAAGAG
1 TTAAATTTGACTATTAACATTTTAAAAAGAG
65707321 TTAAATT
1 TTAAATT
65707328 GTTTTTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (31 bp):
TTAAATTTGACTATTAACATTTTAAAAAGAG
Found at i:65708966 original size:49 final size:49
Alignment explanation
Indices: 65708911--65709057 Score: 169
Period size: 49 Copynumber: 3.0 Consensus size: 49
65708901 ACCACCATCT
*
65708911 TTTCCATAAGCCT-CCTCCTTATGTGTCT-AGAGTAGAGTCA-TCTTATTAC
1 TTTCCATAAGCCTACC-CC-TATGCGTCTGAGAGTAGAGTCACT-TTATTAC
* *
65708960 TTTCCATAAGCCTACCCCTATGCGTCTGGGAGTAGGGTCACTTTATTAC
1 TTTCCATAAGCCTACCCCTATGCGTCTGAGAGTAGAGTCACTTTATTAC
* * * *
65709009 TTTCCATAA-CC-ACCCCCATACGTCTGGGAGTAGGGTCACTTTATTAC
1 TTTCCATAAGCCTACCCCTATGCGTCTGAGAGTAGAGTCACTTTATTAC
65709056 TT
1 TT
65709058 ATCGAGTCGC
Statistics
Matches: 90, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
47 36 0.40
48 10 0.11
49 41 0.46
50 3 0.03
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.35
Consensus pattern (49 bp):
TTTCCATAAGCCTACCCCTATGCGTCTGAGAGTAGAGTCACTTTATTAC
Found at i:65709042 original size:47 final size:49
Alignment explanation
Indices: 65708940--65709057 Score: 179
Period size: 47 Copynumber: 2.4 Consensus size: 49
65708930 TATGTGTCTA
* * *
65708940 GAGTAGAGTCA-TCTTATTACTTTCCATAAGCCTACCCCTATGCGTCTGG
1 GAGTAGGGTCACT-TTATTACTTTCCATAAGCCTACCCCCATACGTCTGG
65708989 GAGTAGGGTCACTTTATTACTTTCCATAA-CC-ACCCCCATACGTCTGG
1 GAGTAGGGTCACTTTATTACTTTCCATAAGCCTACCCCCATACGTCTGG
65709036 GAGTAGGGTCACTTTATTACTT
1 GAGTAGGGTCACTTTATTACTT
65709058 ATCGAGTCGC
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
47 36 0.55
48 2 0.03
49 26 0.40
50 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (49 bp):
GAGTAGGGTCACTTTATTACTTTCCATAAGCCTACCCCCATACGTCTGG
Found at i:65709205 original size:28 final size:29
Alignment explanation
Indices: 65709161--65709215 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
65709151 GGTTGAGTCA
* *
65709161 CCATACTCATTAACAA-CTTGTCAAGTTT
1 CCATACTCAGTAACAACCTGGTCAAGTTT
65709189 CCATACTC-GTAAGCAACCTGGTCAAGT
1 CCATACTCAGTAA-CAACCTGGTCAAGT
65709216 CGCTACACCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 3 0.13
28 11 0.48
29 9 0.39
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (29 bp):
CCATACTCAGTAACAACCTGGTCAAGTTT
Found at i:65718688 original size:25 final size:25
Alignment explanation
Indices: 65718660--65718710 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
65718650 TTATGCCTGA
65718660 TTACATAATGATAATCAACAAATAC
1 TTACATAATGATAATCAACAAATAC
65718685 TTACATAATGATAATCAACAAATAC
1 TTACATAATGATAATCAACAAATAC
65718710 T
1 T
65718711 ATGTAATGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.29
Consensus pattern (25 bp):
TTACATAATGATAATCAACAAATAC
Found at i:65721287 original size:21 final size:22
Alignment explanation
Indices: 65721237--65721287 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
65721227 TAATTTTTAA
*
65721237 ATTTTTTATATTATTTTACTTT
1 ATTTTTTATATAATTTTACTTT
* * *
65721259 AATATTTA-ATAATTTTATTTT
1 ATTTTTTATATAATTTTACTTT
65721280 ATTTTTTA
1 ATTTTTTA
65721288 CTGAAATTCT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (22 bp):
ATTTTTTATATAATTTTACTTT
Found at i:65724706 original size:7 final size:7
Alignment explanation
Indices: 65724696--65724722 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
65724686 TTTTTTCTTT
65724696 TTTTATG
1 TTTTATG
65724703 TTTTATG
1 TTTTATG
65724710 TTTTATG
1 TTTTATG
65724717 TTTTAT
1 TTTTAT
65724723 CTTTATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.74
Consensus pattern (7 bp):
TTTTATG
Found at i:65724824 original size:8 final size:7
Alignment explanation
Indices: 65724798--65724823 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
65724788 TAATATATAT
65724798 TTTTTAA
1 TTTTTAA
65724805 TTTTTAA
1 TTTTTAA
65724812 TTTTTAA
1 TTTTTAA
65724819 TTTTT
1 TTTTT
65724824 TTAAATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAA
Found at i:65724845 original size:23 final size:23
Alignment explanation
Indices: 65724785--65724845 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 23
65724775 TGAAATATTT
* *
65724785 TATT-AATA-TATATTTTTTAAT
1 TATTAAATATTATTTTTTTTAAA
* * * *
65724806 TTTTAATTTTTAATTTTTTTAAA
1 TATTAAATATTATTTTTTTTAAA
65724829 TATTAAATATTATTTTT
1 TATTAAATATTATTTTT
65724846 AATAATATAA
Statistics
Matches: 28, Mismatches: 10, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
21 3 0.11
22 2 0.07
23 23 0.82
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
TATTAAATATTATTTTTTTTAAA
Found at i:65724872 original size:9 final size:9
Alignment explanation
Indices: 65724855--65724946 Score: 50
Period size: 8 Copynumber: 10.0 Consensus size: 9
65724845 TAATAATATA
65724855 AAATA-TTT
1 AAATATTTT
65724863 AAATATTTT
1 AAATATTTT
*
65724872 AAA-CTTTT
1 AAATATTTT
65724880 AAAT-TTGTT
1 AAATATT-TT
*
65724889 -ATTAGTTTT
1 AAATA-TTTT
65724898 ATAATATTTT
1 A-AATATTTT
65724908 AAATATTATTT
1 AAATA-T-TTT
* *
65724919 AATTTGTTTT
1 AA-ATATTTT
65724929 ATAATATTTT
1 A-AATATTTT
65724939 AAA-ATTTT
1 AAATATTTT
65724947 TATATATACT
Statistics
Matches: 66, Mismatches: 7, Indels: 22
0.69 0.07 0.23
Matches are distributed among these distances:
8 21 0.32
9 16 0.24
10 18 0.27
11 10 0.15
12 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (9 bp):
AAATATTTT
Found at i:65728832 original size:26 final size:26
Alignment explanation
Indices: 65728772--65728833 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
65728762 TTTTATTAAT
65728772 TTAAAAATTCAAAAAATATAAAAACTA
1 TTAAAAATT-AAAAAATATAAAAACTA
** * *
65728799 TTTTAAATT-AAAAATCATTAAAATTA
1 TTAAAAATTAAAAAAT-ATAAAAACTA
65728825 TTAAAAATT
1 TTAAAAATT
65728834 TATAAAAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 6 0.21
26 15 0.54
27 7 0.25
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (26 bp):
TTAAAAATTAAAAAATATAAAAACTA
Found at i:65731347 original size:4 final size:4
Alignment explanation
Indices: 65731338--65731443 Score: 56
Period size: 4 Copynumber: 26.0 Consensus size: 4
65731328 TAATTCTGGC
* * * * * *
65731338 ATTT ATTT ATTC ATCT ACTT GTTT ATTT A-TT CTTT ATTCC ATTT ATTTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT-T ATTT A-TTT
* * * *
65731387 ATTC ATTT ATCTGT -TCTT ACTT ATTT ATTT ATAT A-TT ATTA ATTT ATTT
1 ATTT ATTT AT-T-T AT-TT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
65731436 ATTT ATTT
1 ATTT ATTT
65731444 TTGTTTCAAT
Statistics
Matches: 75, Mismatches: 20, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
3 4 0.05
4 59 0.79
5 11 0.15
6 1 0.01
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.65
Consensus pattern (4 bp):
ATTT
Found at i:65731656 original size:12 final size:12
Alignment explanation
Indices: 65731639--65731680 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
65731629 TTTTGTTCAT
65731639 TTATTATCATTA
1 TTATTATCATTA
65731651 TTATTATCATTA
1 TTATTATCATTA
*
65731663 TTTTTATC-TTA
1 TTATTATCATTA
*
65731674 TTTTTAT
1 TTATTAT
65731681 TACTTTGTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 10 0.34
12 19 0.66
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATTATCATTA
Found at i:65735941 original size:183 final size:186
Alignment explanation
Indices: 65735506--65736054 Score: 457
Period size: 189 Copynumber: 2.9 Consensus size: 186
65735496 TCAGTAAAAC
* * * * ** * *
65735506 CACAAATCCTATACCCCTGAAGTTGCAGTGGGATGGATTGAAGTCATTATGGCGAATATTATCTT
1 CACAAATCCTATACCTCTGAAGTTGCAGTAGGATGGATTCAAATCACCATGGCGAATCTTATCTC
** * * * * * * * * ***
65735571 CCTGACGTTGTAGTGGAGAAAATTAAAGCCACAAATCTTATCTCCTTGAAGTCGCAAATGAA-TA
66 CCTGAAATTGTAATGGAGCAAATTGAAGTCACAAACCTTATCTCCCTAAAGTTGCAGCGGAACTA
* * *** * * * * * *
65735635 GATTGAAGTCACAGATCTCATCTATTTGAAATTGTAGTGGAGTAGATCAAAGATT-GAAGC
131 GA-T-AAGTCA-A-ATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAG-TTACAAGT
* * * * **
65735695 CATAAATCTTATACCTCTGAAGTTGCAGTGGGATGGATTGAAATCATTATGGCGAATCTTATCTC
1 CACAAATCCTATACCTCTGAAGTTGCAGTAGGATGGATTCAAATCACCATGGCGAATCTTATCTC
* * * * * * *
65735760 CTTGAAGTTGTAGTGGAGCAAATTGAAG-CTGCTAATCTTATCTCCCTAAAGTTGCAGCGG-AGT
66 CCTGAAATTGTAATGGAGCAAATTGAAGTC-ACAAACCTTATCTCCCTAAAGTTGCAGCGGAACT
*
65735823 AGAT-AG-CGAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGTTACAAGT
130 AGATAAGTCAAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGTTACAAGT
* *
65735878 CACAAATCCTATACCTCTGAAGTTGTAGTAGG-TCGGA-TCAAATCTACCATGGTGAATCTTATC
1 CACAAATCCTATACCTCTGAAGTTGCAGTAGGAT-GGATTCAAATC-ACCATGGCGAATCTTATC
* * *
65735941 TCCCTGAAATTGTAATGGAGTAGATTGAAGTCACAAACCTTATCTCCCTAAAGTTGCAGTGGAAC
64 TCCCTGAAATTGTAATGGAGCAAATTGAAGTCACAAACCTTATCTCCCTAAAGTTGCAGCGGAAC
* * *
65736006 TAGTTGAAGTTACAAATCTTATTTCCCTGAAGTTGTAGTGGAGTAGATT
129 TAGAT-AAG-T-CAAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATT
65736055 GAAAATAGTA
Statistics
Matches: 296, Mismatches: 52, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
182 9 0.03
183 129 0.44
184 7 0.02
185 1 0.00
186 4 0.01
188 3 0.01
189 143 0.48
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (186 bp):
CACAAATCCTATACCTCTGAAGTTGCAGTAGGATGGATTCAAATCACCATGGCGAATCTTATCTC
CCTGAAATTGTAATGGAGCAAATTGAAGTCACAAACCTTATCTCCCTAAAGTTGCAGCGGAACTA
GATAAGTCAAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGTTACAAGT
Found at i:65736120 original size:44 final size:44
Alignment explanation
Indices: 65735932--65736225 Score: 214
Period size: 44 Copynumber: 6.6 Consensus size: 44
65735922 TACCATGGTG
* * * * * * *
65735932 AATCTTATCTCCCTGAAATTGTAATGGAGTAGATTGAAG-TCACA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGAT-ATA
* * * * * * *
65735976 AACCTTATCTCCCTAAAGTTGCAGTGGAACTAG-TTGAAGTTACA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGC-AGACTGAAGATATA
* * * * * *
65736020 AATCTTATTTCCCTGAAGTTGTAGTGGAGTAGATTGAAAATAGTA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATA-TA
* * * *
65736065 ACTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGCTATA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATATA
* * * ** *
65736109 AACCTTATCTCTCTAAAGTTGCAGTGGAGAAGGTTGAAGTTATA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATATA
* * *
65736153 AGTCTTATCTTTCTGAAGTTGTAGTGGAGCAGACTGAAGATAGTA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATA-TA
* * *
65736198 CATCTTATTTCCCTGAAGTTGCAGTGGA
1 AATCTTATCTCTCTGAAGTTGCAGTGGA
65736226 ATAGATTAAA
Statistics
Matches: 195, Mismatches: 50, Indels: 9
0.77 0.20 0.04
Matches are distributed among these distances:
43 2 0.01
44 133 0.68
45 60 0.31
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (44 bp):
AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATATA
Found at i:65736128 original size:89 final size:89
Alignment explanation
Indices: 65736023--65736232 Score: 233
Period size: 89 Copynumber: 2.4 Consensus size: 89
65736013 AGTTACAAAT
* * *
65736023 CTTATTTCCCTGAAGTTGTAGTGGAGTAGATTGAAAATAGTAACTCTTATCTCTCTGAAGTTGCA
1 CTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAAATA-TAACTCTTATCTCTCTGAAGTTGCA
*
65736088 GTAGAGCAGACTAAAGCTA-TAAAC
65 GTAGAGCAGACTAAAGATAGTAAAC
* * * ** * * *
65736112 CTTATCTCTCTAAAGTTGCAGTGGAGAAGGTTGAAGTTATAAGTCTTATCTTTCTGAAGTTGTAG
1 CTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAAATATAACTCTTATCTCTCTGAAGTTGCAG
* * * *
65736177 TGGAGCAGACTGAAGATAGTACAT
66 TAGAGCAGACTAAAGATAGTAAAC
* * *
65736201 CTTATTTCCCTGAAGTTGCAGTGGAATAGATT
1 CTTATCTCCCTAAAGTTGCAGTGGAGTAGATT
65736233 AAAGCTACAA
Statistics
Matches: 98, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
88 38 0.39
89 60 0.61
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (89 bp):
CTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAAATATAACTCTTATCTCTCTGAAGTTGCAG
TAGAGCAGACTAAAGATAGTAAAC
Found at i:65736236 original size:133 final size:131
Alignment explanation
Indices: 65735932--65736242 Score: 376
Period size: 133 Copynumber: 2.3 Consensus size: 131
65735922 TACCATGGTG
* * * *
65735932 AATCTTATCTCCCTGAAATTGTAATGGAGTAGATTGAAG-TCACAAACCTTATCTCCCTAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCT-ACAAACCTTATCTCCCTAAAGTT
* *
65735996 GCAGTGGAACTAGTTGAAGTTACAAATCTTATTTCCCTGAAGTTGTAGTGGAGTAGATTGAAAAT
65 GCAGTGGAAC-AGTTGAAGTTACAAATCTTATTTCCCTGAAGTTGTAGTGGAGCAGACTGAAAAT
65736061 AGT
129 AGT
* * * * * *
65736064 AACTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGCTATAAACCTTATCTCTCTAAAGTT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACAAACCTTATCTCCCTAAAGTT
* * * *
65736129 GCAGTGGAGA-AGGTTGAAGTTATAAGTCTTATCTT-TCTGAAGTTGTAGTGGAGCAGACTGAAG
65 GCAGTGGA-ACA-GTTGAAGTTACAAATCTTAT-TTCCCTGAAGTTGTAGTGGAGCAGACTGAAA
65736192 ATAGT
127 ATAGT
* *
65736197 ACATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACAA
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACAA
65736243 GTTACAAATC
Statistics
Matches: 150, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
132 3 0.02
133 142 0.95
134 5 0.03
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (131 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACAAACCTTATCTCCCTAAAGTTG
CAGTGGAACAGTTGAAGTTACAAATCTTATTTCCCTGAAGTTGTAGTGGAGCAGACTGAAAATAG
T
Found at i:65737652 original size:4 final size:4
Alignment explanation
Indices: 65737628--65737752 Score: 56
Period size: 4 Copynumber: 30.8 Consensus size: 4
65737618 TTAAGTCCTT
* * * * * * *
65737628 TTTA TTTTA ATTA TGTTA TTTA TTTA TTCA TCTA CTTG CTTA TTTA -TTC
1 TTTA -TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * * * *
65737677 TTTA TTCCA TTTA TTTTA TTCA TTTA TCTG TTCA TTTA CTCA TTTA TTTA
1 TTTA TT-TA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
65737727 TATA -TTA TTCA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
65737753 TTGTTTCAAT
Statistics
Matches: 85, Mismatches: 30, Indels: 11
0.67 0.24 0.09
Matches are distributed among these distances:
3 4 0.05
4 66 0.78
5 15 0.18
ACGTcount: A:0.23, C:0.10, G:0.02, T:0.64
Consensus pattern (4 bp):
TTTA
Found at i:65738029 original size:40 final size:40
Alignment explanation
Indices: 65737977--65738059 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
65737967 TATTATCATT
65737977 ATTTTTTATCTTATTTTCACTACTTTGTCATTTTTTTATC
1 ATTTTTTATCTTATTTTCACTACTTTGTCATTTTTTTATC
65738017 ATTTTTTATCTTATTTTCACTACTTTGTCATTTTTTTATC
1 ATTTTTTATCTTATTTTCACTACTTTGTCATTTTTTTATC
65738057 ATT
1 ATT
65738060 CTCGTATCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.18, C:0.14, G:0.02, T:0.65
Consensus pattern (40 bp):
ATTTTTTATCTTATTTTCACTACTTTGTCATTTTTTTATC
Found at i:65738626 original size:38 final size:38
Alignment explanation
Indices: 65738537--65738995 Score: 170
Period size: 38 Copynumber: 12.4 Consensus size: 38
65738527 ACCCTTATTT
* * * *
65738537 AAGGGTTGGGAAAGACCTAGTCAATGCCAACCTTTAAA
1 AAGGGTTGCGATAGACCTAGTTAAGGCCAACCTTTAAA
*
65738575 AAGGGTTGGGATAGACCTAGTTAAGGCCAACCTTTGAAA
1 AAGGGTTGCGATAGACCTAGTTAAGGCCAACCTTT-AAA
* *
65738614 AA-GTTTGCGATAGACCT-GTTTAAGG-CAGCC-TT-AA
1 AAGGGTTGCGATAGACCTAG-TTAAGGCCAACCTTTAAA
** * * *
65738648 AAGGGTTG-GTATAGTTCTTGTTTAACG-CAACTTTTAAA
1 AAGGGTTGCG-ATAGACCTAG-TTAAGGCCAACCTTTAAA
* * *
65738686 AACGATTGGGATAGAGCC--GTCTAAGG-CAACC-TTAAA
1 AAGGGTTGCGATAGA-CCTAGT-TAAGGCCAACCTTTAAA
* * * *
65738722 AA-GGTTGAGATAGACCTTGTCTAA-GACAACCTATAAAA
1 AAGGGTTGCGATAGACCTAGT-TAAGGCCAACCT-TTAAA
* *
65738760 AAAGGTTGGGATAGACCTA-TCTAAGG-CAACC-TTAAA
1 AAGGGTTGCGATAGACCTAGT-TAAGGCCAACCTTTAAA
* * * *
65738796 CAGGCTAG-GATAGACC-ATGTCTAAGG-CAACCTTAAAA
1 AAGGGTTGCGATAGACCTA-GT-TAAGGCCAACCTTTAAA
** *
65738833 AAAAGTTG-GAATAGACC-CGTTCAAGG-CAACC-TTAAA
1 AAGGGTTGCG-ATAGACCTAGTT-AAGGCCAACCTTTAAA
* *
65738869 AA-GGTTGGGATAGA-CTATGTCTAAGG-CAACTTTTAAA
1 AAGGGTTGCGATAGACCTA-GT-TAAGGCCAACCTTTAAA
** * *
65738906 AAAAGTTGGGATAGACCT-GTCTAAGG-CAGCC-TT-AA
1 AAGGGTTGCGATAGACCTAGT-TAAGGCCAACCTTTAAA
* * * * * *
65738941 AATGGTTGGGATAAATCTTGTCTAAGG-CAACTTTTAAA
1 AAGGGTTGCGATAGACCTAGT-TAAGGCCAACCTTTAAA
* *
65738979 AAAGGTTGGGATAGACC
1 AAGGGTTGCGATAGACC
65738996 CGTTTAAAGC
Statistics
Matches: 338, Mismatches: 51, Indels: 64
0.75 0.11 0.14
Matches are distributed among these distances:
34 9 0.03
35 54 0.16
36 82 0.24
37 56 0.17
38 113 0.33
39 24 0.07
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (38 bp):
AAGGGTTGCGATAGACCTAGTTAAGGCCAACCTTTAAA
Found at i:65738965 original size:220 final size:218
Alignment explanation
Indices: 65738611--65739102 Score: 562
Period size: 219 Copynumber: 2.2 Consensus size: 218
65738601 CCAACCTTTG
* * * * * * *
65738611 AAAAAGTTTGCGATAGACCTGTTTAAGGCAGCCTTAAAAGGGTTGGTATAGTTCTTGTTTAACGC
1 AAAAAGTTAG-GATAGACCCGTTTAAGGCAACCTTAAAAAGGTTGGGATAG-ACTTGTCTAACGC
* *
65738676 AACTTTTAAAAACGATTGGGATAGAGCCGTCTAAGGCAACCTTAAAAAGGTTGAGATAGACCTTG
64 AACTTTTAAAAAAGATTGGGATAGAGCCGTCTAAGGCAACCTTAAAAAGGTTGAGATAAACCTTG
* *
65738741 TCTAAGACAACCTATAAAAAAAGGTTGGGATAGACCTATCTAAGGCAACCTTA-AACAGGCTAG-
129 TCTAAGACAA-CTATAAAAAAAGGTTGGGATAGACCCATCTAAAGCAACCTTAGAA-AGG-TAGA
*
65738804 GATAGACCATGTCTAAGGCAACCTTAAA
191 GATAAACCATGTCTAAGGCAACCTTAAA
* *
65738832 AAAAAGTT-GGAATAGACCCGTTCAAGGCAACCTTAAAAAGGTTGGGATAGACTATGTCTAAGGC
1 AAAAAGTTAGG-ATAGACCCGTTTAAGGCAACCTTAAAAAGGTTGGGATAGACT-TGTCTAACGC
* * * *
65738896 AACTTTTAAAAAA-AGTTGGGATAGA-CCTGTCTAAGGCAGCCTTAAAATGGTTGGGATAAATCT
64 AACTTTTAAAAAAGA-TTGGGATAGAGCC-GTCTAAGGCAACCTTAAAAAGGTTGAGATAAACCT
* * * * * * *
65738959 TGTCTAAGGCAACTTTTAAAAAAGGTTGGGATAGACCCGTTTAAAGCAACTTTAGAAAGGTTGAG
127 TGTCTAAGACAACTATAAAAAAAGGTTGGGATAGACCCATCTAAAGCAACCTTAGAAAGGTAGAG
* * * *
65739024 ATAAATCTTGTCTAAGGTAACCTTTAA
192 ATAAACCATGTCTAAGGCAACCTTAAA
* ** * *
65739051 AAAAAGTTAGGATAAACCCGTTTAAGATAACCTGAAAAAGATTGGGATAGAC
1 AAAAAGTTAGGATAGACCCGTTTAAGGCAACCTTAAAAAGGTTGGGATAGAC
65739103 ACGTATAATG
Statistics
Matches: 230, Mismatches: 34, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
218 2 0.01
219 110 0.48
220 110 0.48
221 8 0.03
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (218 bp):
AAAAAGTTAGGATAGACCCGTTTAAGGCAACCTTAAAAAGGTTGGGATAGACTTGTCTAACGCAA
CTTTTAAAAAAGATTGGGATAGAGCCGTCTAAGGCAACCTTAAAAAGGTTGAGATAAACCTTGTC
TAAGACAACTATAAAAAAAGGTTGGGATAGACCCATCTAAAGCAACCTTAGAAAGGTAGAGATAA
ACCATGTCTAAGGCAACCTTAAA
Found at i:65739064 original size:73 final size:72
Alignment explanation
Indices: 65738564--65739076 Score: 464
Period size: 73 Copynumber: 7.0 Consensus size: 72
65738554 TAGTCAATGC
* * * *
65738564 CAACCTTTAAAAAGGGTTGGGATAGACCTAGT-TAAGGCCAACCTTT-GAAAAAGTTTGCGATAG
1 CAACC-TT-AAAA-GGTTGAGATAGACCTTGTCTAAGG-CAACCTTTAAAAAAAG-TTGGGATAG
* *
65738627 ACCTGTTTAAGG
61 ACCCGTCTAAGG
* ** * * * * *
65738639 CAGCCTTAAAAGGGTTG-GTATAGTTCTTGTTTAACGCAA-CTTTTAAAAACGATTGGGATAGAG
1 CAACCTTAAAA-GGTTGAG-ATAGACCTTGTCTAAGGCAACCTTTAAAAAAAG-TTGGGATAGAC
65738702 CCGTCTAAGG
63 CCGTCTAAGG
* *
65738712 CAACCTTAAAAAGGTTGAGATAGACCTTGTCTAAGACAACCTATAAAAAAAGGTTGGGATAGACC
1 CAACCTT-AAAAGGTTGAGATAGACCTTGTCTAAGGCAACCTTTAAAAAAA-GTTGGGATAGACC
**
65738777 TATCTAAGG
64 CGTCTAAGG
* * * *
65738786 CAACCTTAAACAGGCT-AGGATAGACCATGTCTAAGGCAACCTTAAAAAAAAGTTGGAATAGACC
1 CAACCTTAAA-AGGTTGA-GATAGACCTTGTCTAAGGCAACCTTTAAAAAAAGTTGGGATAGACC
65738850 CGT-TCAAGG
64 CGTCT-AAGG
* *
65738859 CAACCTTAAAAAGGTTGGGATAGA-CTATGTCTAAGGCAACTTTTAAAAAAAGTTGGGATAGACC
1 CAACCTT-AAAAGGTTGAGATAGACCT-TGTCTAAGGCAACCTTTAAAAAAAGTTGGGATAGACC
*
65738923 TGTCTAAGG
64 CGTCTAAGG
* * * * * *
65738932 CAGCCTTAAAATGGTTGGGATAAATCTTGTCTAAGGCAACTTTTAAAAAAGGTTGGGATAGACCC
1 CAACCTTAAAA-GGTTGAGATAGACCTTGTCTAAGGCAACCTTTAAAAAAAGTTGGGATAGACCC
* *
65738997 GTTTAAAG
65 GTCTAAGG
* * * * * *
65739005 CAACTTTAGAAAGGTTGAGATAAATCTTGTCTAAGGTAACCTTTAAAAAAAGTTAGGATAAACCC
1 CAACCTTA-AAAGGTTGAGATAGACCTTGTCTAAGGCAACCTTTAAAAAAAGTTGGGATAGACCC
*
65739070 GTTTAAG
65 GTCTAAG
65739077 ATAACCTGAA
Statistics
Matches: 367, Mismatches: 54, Indels: 36
0.80 0.12 0.08
Matches are distributed among these distances:
72 11 0.03
73 265 0.72
74 86 0.23
75 5 0.01
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.26
Consensus pattern (72 bp):
CAACCTTAAAAGGTTGAGATAGACCTTGTCTAAGGCAACCTTTAAAAAAAGTTGGGATAGACCCG
TCTAAGG
Done.