Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 198 of 210
Found at i:65945772 original size:16 final size:16
Alignment explanation
Indices: 65945738--65945782 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
65945728 TTATGTAAAA
65945738 AAATTAAAT-TATATC
1 AAATTAAATATATATC
*
65945753 AAATTAAATATATATT
1 AAATTAAATATATATC
65945769 AAATCCTAAATATA
1 AAAT--TAAATATA
65945783 AATAGTAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 9 0.35
16 9 0.35
18 8 0.31
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATTAAATATATATC
Found at i:65966283 original size:33 final size:33
Alignment explanation
Indices: 65966183--65966287 Score: 94
Period size: 33 Copynumber: 3.3 Consensus size: 33
65966173 TCTTTTAGGC
* * *
65966183 TTAGTAGTTAATCTTCTTCACCATTATTAAGGT
1 TTAGTAGTTAGTCTTTTTCACCATTATTAGGGT
** * *
65966216 TTAGTTCTTAG-CTTTTTCTA--GTT-TT-GGTT
1 TTAGTAGTTAGTCTTTTTC-ACCATTATTAGGGT
65966245 GTTAGTAGTTAGTCTTTTTCACCATTATTAGGGT
1 -TTAGTAGTTAGTCTTTTTCACCATTATTAGGGT
65966279 TTAGTAGTT
1 TTAGTAGTT
65966288 GACATTTGTC
Statistics
Matches: 54, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
29 2 0.04
30 12 0.22
31 9 0.17
32 8 0.15
33 20 0.37
34 3 0.06
ACGTcount: A:0.20, C:0.11, G:0.17, T:0.51
Consensus pattern (33 bp):
TTAGTAGTTAGTCTTTTTCACCATTATTAGGGT
Found at i:65967006 original size:27 final size:27
Alignment explanation
Indices: 65966976--65967027 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
65966966 GGTTCGATCA
* *
65966976 TTGGAATACTCGGGTGTTCCTTTGTCT
1 TTGGAATACTCGGATGTTCCATTGTCT
65967003 TTGGAATACTCGGATGTTCCATTGT
1 TTGGAATACTCGGATGTTCCATTGT
65967028 AACACCATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.15, C:0.17, G:0.25, T:0.42
Consensus pattern (27 bp):
TTGGAATACTCGGATGTTCCATTGTCT
Found at i:65968106 original size:26 final size:28
Alignment explanation
Indices: 65968064--65968116 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 28
65968054 TATGTTCTAA
65968064 TTTTCTCCTTTTCTCTT-CTTT-TTTTG
1 TTTTCTCCTTTTCTCTTCCTTTATTTTG
*
65968090 TTTTCT-CTTCTTTTCTTCCTTTATTTT
1 TTTTCTCCTT-TTCTCTTCCTTTATTTT
65968117 CCTCTCGCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 3 0.13
26 12 0.52
27 4 0.17
28 4 0.17
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.74
Consensus pattern (28 bp):
TTTTCTCCTTTTCTCTTCCTTTATTTTG
Found at i:65969583 original size:14 final size:14
Alignment explanation
Indices: 65969566--65969592 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
65969556 TATTTCCCTC
65969566 TTTTCCCTTTCTTG
1 TTTTCCCTTTCTTG
65969580 TTTTCCCTTTCTT
1 TTTTCCCTTTCTT
65969593 CTTTCGATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.30, G:0.04, T:0.67
Consensus pattern (14 bp):
TTTTCCCTTTCTTG
Found at i:65970421 original size:30 final size:30
Alignment explanation
Indices: 65970375--65970436 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
65970365 GGGAGGTGGG
65970375 ATGGGAAGGGAATAAAAGATTTAGGGGAAAA
1 ATGGGAAGGGAATAAAA-ATTTAGGGGAAAA
* * *
65970406 ATGGG-AGGGAGTAAAAATTTTGGGGGAAA
1 ATGGGAAGGGAATAAAAATTTAGGGGAAAA
65970435 AT
1 AT
65970437 AAAAGGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 13 0.46
30 10 0.36
31 5 0.18
ACGTcount: A:0.44, C:0.00, G:0.37, T:0.19
Consensus pattern (30 bp):
ATGGGAAGGGAATAAAAATTTAGGGGAAAA
Found at i:65970580 original size:30 final size:31
Alignment explanation
Indices: 65970539--65970599 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
65970529 GGGTTGGGAG
* *
65970539 GGGAGGGGAGTAAAAGTTTTGGGGGGAAAGT
1 GGGAGGGGAGTAAAAGTTTTGAGGGAAAAGT
*
65970570 GGGA-GGGAGTAAATGTTTTGAGGGAAAAGT
1 GGGAGGGGAGTAAAAGTTTTGAGGGAAAAGT
65970600 AAAAAGGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.31, C:0.00, G:0.48, T:0.21
Consensus pattern (31 bp):
GGGAGGGGAGTAAAAGTTTTGAGGGAAAAGT
Found at i:65970736 original size:9 final size:9
Alignment explanation
Indices: 65970719--65970749 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
65970709 TCGAGTTGAT
65970719 TCGAATAAC
1 TCGAATAAC
*
65970728 TCGATTAAC
1 TCGAATAAC
65970737 TCGAATAAC
1 TCGAATAAC
65970746 TCGA
1 TCGA
65970750 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:65971557 original size:17 final size:17
Alignment explanation
Indices: 65971535--65971567 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
65971525 CAACCAATTG
65971535 TCATTTTATACAATTTT
1 TCATTTTATACAATTTT
*
65971552 TCATTTTATTCAATTT
1 TCATTTTATACAATTT
65971568 AGTCCCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (17 bp):
TCATTTTATACAATTTT
Found at i:65971910 original size:15 final size:14
Alignment explanation
Indices: 65971892--65971925 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
65971882 ACAAATTGAA
65971892 AAAGAAAAAAAAAG
1 AAAGAAAAAAAAAG
*
65971906 CAAAGAAAAGAAAAG
1 -AAAGAAAAAAAAAG
65971921 AAAGA
1 AAAGA
65971926 GAGACTAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAAAG
Found at i:65978519 original size:15 final size:14
Alignment explanation
Indices: 65978492--65978518 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
65978482 TTGTTTTATT
65978492 GAAAATAATTTTTA
1 GAAAATAATTTTTA
65978506 GAAAATAATTTTT
1 GAAAATAATTTTT
65978519 TGTATTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (14 bp):
GAAAATAATTTTTA
Found at i:65984211 original size:15 final size:15
Alignment explanation
Indices: 65984191--65984247 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
65984181 ATTCAATATT
65984191 AATATTTTAATAATA
1 AATATTTTAATAATA
*
65984206 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
65984225 AATATATTAATAATA
1 AATATTTTAATAATA
65984240 AATATTTT
1 AATATTTT
65984248 TTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:65986872 original size:9 final size:9
Alignment explanation
Indices: 65986858--65986894 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
65986848 TATAGTTTGA
65986858 TATTCGAAT
1 TATTCGAAT
65986867 TATTCGAAT
1 TATTCGAAT
*
65986876 TATTCGAGT
1 TATTCGAAT
65986885 TATTCGAAT
1 TATTCGAAT
65986894 T
1 T
65986895 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:65989183 original size:45 final size:44
Alignment explanation
Indices: 65989130--65989219 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 44
65989120 GGGCTATAAT
*
65989130 TGAAATAGAGTTGTAATAATAATTCAAT-TGTTTGGTTGAATGGAA
1 TGAAATAGAGTTGTAATAAT-ATTC-ATGTGTTTGATTGAATGGAA
*
65989175 TGAAATAGAGTTGTAATAATATTCTTGTGTTTGATTGAATGGAA
1 TGAAATAGAGTTGTAATAATATTCATGTGTTTGATTGAATGGAA
65989219 T
1 T
65989220 AGATATTGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.50
45 20 0.48
ACGTcount: A:0.36, C:0.02, G:0.22, T:0.40
Consensus pattern (44 bp):
TGAAATAGAGTTGTAATAATATTCATGTGTTTGATTGAATGGAA
Found at i:66002532 original size:24 final size:24
Alignment explanation
Indices: 66002503--66002551 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
66002493 TATTTCAAAG
66002503 TAGAATTTATTATTATTTATCCAT
1 TAGAATTTATTATTATTTATCCAT
66002527 TAGAATTTATTATTATTTATCCAT
1 TAGAATTTATTATTATTTATCCAT
66002551 T
1 T
66002552 TACTTAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (24 bp):
TAGAATTTATTATTATTTATCCAT
Found at i:66010598 original size:13 final size:14
Alignment explanation
Indices: 66010557--66010605 Score: 59
Period size: 13 Copynumber: 3.6 Consensus size: 14
66010547 TTCAAAAGTA
66010557 TTTCTAAAAATCACT
1 TTTCT-AAAATCACT
*
66010572 TCTC-AAAATCACT
1 TTTCTAAAATCACT
66010585 TTTCTAAAAT-ACT
1 TTTCTAAAATCACT
66010598 TTT-TAAAA
1 TTTCTAAAA
66010606 GGAATGCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 5 0.16
13 18 0.58
14 5 0.16
15 3 0.10
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (14 bp):
TTTCTAAAATCACT
Found at i:66021142 original size:99 final size:99
Alignment explanation
Indices: 66020967--66021597 Score: 750
Period size: 99 Copynumber: 6.4 Consensus size: 99
66020957 TAACCATAGT
* *
66020967 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTT-TCAAGCGGTGCAGCGGAACAGA
1 TTGCAA-TTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGA
* *
66021031 TTGAAGCTACAACGGCGGATCTTACTTCCCTAACA
65 TTGAAGCTACAACGGCGGATCTCACTTCCCTGACA
* * * *
66021066 TTGCAATTAAAAGATTGAAGCCACAACGGCAAATCTTACTTCCCAGGCGTTGCAGTGGAACAGAT
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGAT
* *
66021131 TGAAGCTACAACAGCGGATCTTACTTCCCTGACA
66 TGAAGCTACAACGGCGGATCTCACTTCCCTGACA
* * * * *
66021165 TTGCAGTTTAAAGGATCGAAGCCACAACGGCGAATCTTACTT-TCAGGCGATGCAACGAAACAGA
1 TTGCA-ATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGA
*
66021229 TTGAAGCTACAACGGCGGATCTCACTTCCCTAACA
65 TTGAAGCTACAACGGCGGATCTCACTTCCCTGACA
* * * * * *
66021264 TTGTAATTAAAAGATTGAAGCCACAACGACGAATCTTACTTCCCAGGCGTTGCAGTGGAATAGAT
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGAT
* *
66021329 TGAAGCTACAACAGCGGATCTTACTTCCCTGACA
66 TGAAGCTACAACGGCGGATCTCACTTCCCTGACA
* * * * ** * *
66021363 TTGCAGTTTTAAGGATCGAAGCCACAACAACGAATCTTACTT-TCAGGCGATGCAACGGAACAAA
1 TTGCA-ATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGA
* * * * *
66021427 TTGAAGGTACAAAGGCGAATCTCGCTTCCCCGACA
65 TTGAAGCTACAACGGCGGATCTCACTTCCCTGACA
* * * *
66021462 TTGTAATTAAAAGATTGAGGCCACAACGACGAATCTTACTTCTTAGGCGATGCAGCGGAACAGAT
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGAT
* * * * *
66021527 TGAAGCCACGATGGCGAATCTCACTTTCCC-GATA
66 TGAAGCTACAACGGCGGATCTCAC-TTCCCTGACA
* * *
66021561 TTACAACT-AAAGATTGAAGCCACAACGGCAAATCTTA
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTA
66021598 TTTCCTCGGC
Statistics
Matches: 452, Mismatches: 74, Indels: 13
0.84 0.14 0.02
Matches are distributed among these distances:
98 122 0.27
99 262 0.58
100 68 0.15
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (99 bp):
TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGAT
TGAAGCTACAACGGCGGATCTCACTTCCCTGACA
Found at i:66021322 original size:198 final size:198
Alignment explanation
Indices: 66020967--66021532 Score: 889
Period size: 198 Copynumber: 2.9 Consensus size: 198
66020957 TAACCATAGT
* * * * * *
66020967 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCAAGCGGTGCAGCGGAACAGAT
1 TTGCAGTTTAAAGGATCGAAGCCACAACGGCGAATCTTACTTTCAGGCGATGCAACGGAACAGAT
* * * *
66021032 TGAAGCTACAACGGCGGATCTTACTTCCCTAACATTGCAATTAAAAGATTGAAGCCACAACGGCA
66 TGAAGCTACAACGGCGGATCTCACTTCCCTAACATTGTAATTAAAAGATTGAAGCCACAACGACG
66021097 AATCTTACTTCCCAGGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTG
131 AATCTTACTTCCCAGGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTG
66021162 ACA
196 ACA
*
66021165 TTGCAGTTTAAAGGATCGAAGCCACAACGGCGAATCTTACTTTCAGGCGATGCAACGAAACAGAT
1 TTGCAGTTTAAAGGATCGAAGCCACAACGGCGAATCTTACTTTCAGGCGATGCAACGGAACAGAT
66021230 TGAAGCTACAACGGCGGATCTCACTTCCCTAACATTGTAATTAAAAGATTGAAGCCACAACGACG
66 TGAAGCTACAACGGCGGATCTCACTTCCCTAACATTGTAATTAAAAGATTGAAGCCACAACGACG
*
66021295 AATCTTACTTCCCAGGCGTTGCAGTGGAATAGATTGAAGCTACAACAGCGGATCTTACTTCCCTG
131 AATCTTACTTCCCAGGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTG
66021360 ACA
196 ACA
* ** *
66021363 TTGCAGTTTTAAGGATCGAAGCCACAACAACGAATCTTACTTTCAGGCGATGCAACGGAACAAAT
1 TTGCAGTTTAAAGGATCGAAGCCACAACGGCGAATCTTACTTTCAGGCGATGCAACGGAACAGAT
* * * * ** *
66021428 TGAAGGTACAAAGGCGAATCTCGCTTCCCCGACATTGTAATTAAAAGATTGAGGCCACAACGACG
66 TGAAGCTACAACGGCGGATCTCACTTCCCTAACATTGTAATTAAAAGATTGAAGCCACAACGACG
** * *
66021493 AATCTTACTTCTTAGGCGATGCAGCGGAACAGATTGAAGC
131 AATCTTACTTCCCAGGCGTTGCAGTGGAACAGATTGAAGC
66021533 CACGATGGCG
Statistics
Matches: 339, Mismatches: 29, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
198 339 1.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (198 bp):
TTGCAGTTTAAAGGATCGAAGCCACAACGGCGAATCTTACTTTCAGGCGATGCAACGGAACAGAT
TGAAGCTACAACGGCGGATCTCACTTCCCTAACATTGTAATTAAAAGATTGAAGCCACAACGACG
AATCTTACTTCCCAGGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTG
ACA
Found at i:66021384 original size:50 final size:50
Alignment explanation
Indices: 66020974--66021602 Score: 349
Period size: 49 Copynumber: 12.7 Consensus size: 50
66020964 AGTTTGCAAT
* ** ** *
66020974 TTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCAAG-CGGTGCAGC
1 TTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAGA
** * * * *
66021023 GGAACAGATTGAAGCTACAACGGCGGATCTTACTTCCCTAACATTGCA-A
1 TTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAGA
* * * *
66021072 TTAAAAGATTGAAGCCACAACGGCAAATCTTACTTCCCAGGCGTTGCAG-
1 TTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAGA
* * * * * *
66021121 TGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAGT
1 T-TAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAGA
* * * * *
66021172 TTAAAGGATCGAAGCCACAACGGCGAATCTTACTT-TCAGGCGA-TGCA-A
1 TTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGAC-ATTGCAGA
** * * * * *
66021220 CGAAACAGATTGAAGCTACAACGGCGGATCTCACTTCCCTAACATTGTA-A
1 TTAAA-AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAGA
* * * *
66021270 TTAAAAGATTGAAGCCACAACGACGAATCTTACTTCCCAGGCGTTGCAG-
1 TTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAGA
* * * * * *
66021319 TGGAATAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAGT
1 T-TAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAGA
* * * ** * * *
66021370 TTTAAGGATCGAAGCCACAACAACGAATCTTACTT-TCAGGCGA-TGCA-A
1 TTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGAC-ATTGCAGA
** ** * ** * *
66021418 CGGAACAA-ATTGAAGGTACAAAGGCGAATCTCGCTTCCCCGACATTGTA-A
1 -TTAA-AAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAGA
* * * * *
66021468 TTAAAAGATTGAGGCCACAACGACGAATCTTACTT-CTTAGGCGA-TGCAGC
1 TTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCT-GAC-ATTGCAGA
** * * * * * *
66021518 GGAACAGATTGAAGCCACGATGGCGAATCTCACTTTCCC-GATATTACA-A
1 TTAAAAGATTGAAGCCACAACGGCGAATCTTAC-TTCCCTGACATTGCAGA
* * *
66021567 CT-AAAGATTGAAGCCACAACGGCAAATCTTATTTCC
1 TTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCC
66021603 TCGGCGAGAC
Statistics
Matches: 420, Mismatches: 137, Indels: 48
0.69 0.23 0.08
Matches are distributed among these distances:
47 4 0.01
48 30 0.07
49 196 0.47
50 185 0.44
51 4 0.01
52 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.23
Consensus pattern (50 bp):
TTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAGA
Found at i:66023323 original size:53 final size:52
Alignment explanation
Indices: 66023265--66023366 Score: 127
Period size: 53 Copynumber: 1.9 Consensus size: 52
66023255 ACAATTTTAT
**
66023265 TCATTACTATTGTTT-CATTTGGTG-TTAATTTATTTATTTATTTATTTACATGC
1 TCATTACTATTGTTTGC-TTAAGTGCTTAA-TT-TTTATTTATTTATTTACATGC
*
66023318 TCATTATTATTGTTTGCTTAAGTGCTTTAATTTTTATTTATTTATTTAC
1 TCATTACTATTGTTTGCTTAAGTGC-TTAATTTTTATTTATTTATTTAC
66023367 TTTTATTTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
53 36 0.84
54 3 0.07
55 4 0.09
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.60
Consensus pattern (52 bp):
TCATTACTATTGTTTGCTTAAGTGCTTAATTTTTATTTATTTATTTACATGC
Found at i:66023388 original size:18 final size:19
Alignment explanation
Indices: 66023343--66023390 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
66023333 GCTTAAGTGC
* *
66023343 TTTAATTTTTATTTATTTA
1 TTTACTTTTTATTTATTGA
*
66023362 TTTAC-TTTTATTTGTTGA
1 TTTACTTTTTATTTATTGA
66023380 TTT-CTTTTTAT
1 TTTACTTTTTAT
66023391 CCTATATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 1 0.04
18 20 0.80
19 4 0.16
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (19 bp):
TTTACTTTTTATTTATTGA
Found at i:66040477 original size:27 final size:27
Alignment explanation
Indices: 66040447--66040511 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
66040437 TATCTCAGAA
*
66040447 GCGCCAATGGTGGTGCCTAT-TTAATAG
1 GCGCCAATGGTGGTGCC-ATGTTAAGAG
* * *
66040474 GCGCCATTAGTGGTGCCATGTTGAGAG
1 GCGCCAATGGTGGTGCCATGTTAAGAG
66040501 GCGCCAATGGT
1 GCGCCAATGGT
66040512 CTTATTTTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (27 bp):
GCGCCAATGGTGGTGCCATGTTAAGAG
Found at i:66044522 original size:14 final size:13
Alignment explanation
Indices: 66044473--66044535 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
66044463 CTGAATCCAA
66044473 ACTTTTCAAAAGT-
1 ACTTTTCAAAA-TC
* *
66044486 ATTTTTAAAAATC
1 ACTTTTCAAAATC
*
66044499 ACTTCTCAAAATC
1 ACTTTTCAAAATC
66044512 ACTTTTCCAAAAT-
1 ACTTTT-CAAAATC
*
66044525 ACTTTTTAAAA
1 ACTTTTCAAAA
66044536 GGAATGCTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
12 5 0.12
13 30 0.73
14 6 0.15
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.40
Consensus pattern (13 bp):
ACTTTTCAAAATC
Found at i:66046192 original size:30 final size:30
Alignment explanation
Indices: 66046135--66046192 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
66046125 ATATATATAT
*
66046135 TATAATAAACAAAATAATAATATAATAATG
1 TATAATAAACAAAATAAGAATATAATAATG
66046165 TATAATAAA-ACAAATAAAGAATA-AATAA
1 TATAATAAACA-AAAT-AAGAATATAATAA
66046193 AAAAGAAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 1 0.04
30 18 0.72
31 6 0.24
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.26
Consensus pattern (30 bp):
TATAATAAACAAAATAAGAATATAATAATG
Found at i:66046880 original size:24 final size:24
Alignment explanation
Indices: 66046852--66046898 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
66046842 ATTGAAATGA
66046852 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
66046876 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
66046899 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:66047099 original size:41 final size:40
Alignment explanation
Indices: 66047054--66047189 Score: 147
Period size: 40 Copynumber: 3.5 Consensus size: 40
66047044 CGACTTCAAG
66047054 TCGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAA
1 TCGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAA
* * * *
66047094 TTCGATGAGGCACTAGGTGCCAA--T-TTACTTCGGTTTAA
1 -TCGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAA
* *
66047132 CCGATGAGACACTGTGTGTCAATTTATTACTT-GGAATT-A
1 TCGATGAGACACTGGGTGTCAATTTATTACTTCGG-ATTAA
*
66047171 TCTGATGAGGCACTGGGTG
1 TC-GATGAGACACTGGGTG
66047190 CAAAACTGAT
Statistics
Matches: 77, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
37 17 0.22
38 13 0.17
39 6 0.08
40 22 0.29
41 19 0.25
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (40 bp):
TCGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAA
Found at i:66047155 original size:37 final size:37
Alignment explanation
Indices: 66047055--66047157 Score: 109
Period size: 37 Copynumber: 2.6 Consensus size: 37
66047045 GACTTCAAGT
*
66047055 CGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAATT
1 CGATGAGACACT-GGTGTCAA--T-TTACTTCGGATTAATC
* * *
66047096 CGATGAGGCACTAGGTGCCAATTTACTTCGGTTTAA-C
1 CGATGAGACACT-GGTGTCAATTTACTTCGGATTAATC
66047133 CGATGAGACACTGTGTGTCAATTTA
1 CGATGAGACACTG-GTGTCAATTTA
66047158 TTACTTGGAA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
36 1 0.02
37 21 0.39
38 13 0.24
39 1 0.02
41 18 0.33
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.33
Consensus pattern (37 bp):
CGATGAGACACTGGTGTCAATTTACTTCGGATTAATC
Found at i:66049154 original size:16 final size:16
Alignment explanation
Indices: 66049133--66049165 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
66049123 GTGGATCAAT
66049133 AGAAAAA-CAAATAAAA
1 AGAAAAAGCAAA-AAAA
66049149 AGAAAAAGCAAAAAAA
1 AGAAAAAGCAAAAAAA
66049165 A
1 A
66049166 CTGAGTTTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.82, C:0.06, G:0.09, T:0.03
Consensus pattern (16 bp):
AGAAAAAGCAAAAAAA
Found at i:66066576 original size:17 final size:18
Alignment explanation
Indices: 66066551--66066585 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
66066541 ACACGTGCCA
66066551 AATTCTTATATT-TTTAT
1 AATTCTTATATTATTTAT
*
66066568 AATTTTTATATTATTTAT
1 AATTCTTATATTATTTAT
66066586 TAAGGCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (18 bp):
AATTCTTATATTATTTAT
Found at i:66067324 original size:5 final size:6
Alignment explanation
Indices: 66067286--66067311 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
66067276 ATTATGTTTA
66067286 AATTTT AATTTT AATTTT AATTTT AA
1 AATTTT AATTTT AATTTT AATTTT AA
66067312 CATAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
AATTTT
Found at i:66069372 original size:18 final size:17
Alignment explanation
Indices: 66069349--66069418 Score: 61
Period size: 17 Copynumber: 4.0 Consensus size: 17
66069339 TAAAAATATT
66069349 TTTTATAATTTTTAAAAA
1 TTTTAT-ATTTTTAAAAA
66069367 TTTTAT-TTTTTAAATAAA
1 TTTTATATTTTT-AA-AAA
* **
66069385 TTGTATATTTTTATGAA
1 TTTTATATTTTTAAAAA
* *
66069402 TTTTTTAATTTTAAAAA
1 TTTTATATTTTTAAAAA
66069419 ATTAATTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
16 5 0.12
17 16 0.39
18 15 0.37
19 5 0.12
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTTATATTTTTAAAAA
Found at i:66072829 original size:83 final size:84
Alignment explanation
Indices: 66072734--66072900 Score: 327
Period size: 83 Copynumber: 2.0 Consensus size: 84
66072724 AATACTTATT
66072734 ATCAGCAATTTTTTTATTTGATTATCTAAATACATTTGAAAAATAATTTGCGTTACATTTTAAAA
1 ATCAGCAATTTTTTTATTTGATTATCTAAATACATTTGAAAAATAATTTGCGTTACATTTTAAAA
66072799 ATATTT-AAAATATTTTAA
66 ATATTTAAAAATATTTTAA
66072817 ATCAGCAATTTTTTTATTTGATTATCTAAATACATTTGAAAAATAATTTGCGTTACATTTTAAAA
1 ATCAGCAATTTTTTTATTTGATTATCTAAATACATTTGAAAAATAATTTGCGTTACATTTTAAAA
66072882 ATATTTAAAAATATTTTAA
66 ATATTTAAAAATATTTTAA
66072901 TATTAAAAAT
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
83 71 0.86
84 12 0.14
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (84 bp):
ATCAGCAATTTTTTTATTTGATTATCTAAATACATTTGAAAAATAATTTGCGTTACATTTTAAAA
ATATTTAAAAATATTTTAA
Found at i:66076765 original size:25 final size:25
Alignment explanation
Indices: 66076733--66076785 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
66076723 TATATATCAC
66076733 TAAAAGTAGGAACTTATATAAGTTT
1 TAAAAGTAGGAACTTATATAAGTTT
66076758 TAAAAGTAGGAACTTATATAAGTTT
1 TAAAAGTAGGAACTTATATAAGTTT
66076783 TAA
1 TAA
66076786 GAACTATACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.45, C:0.04, G:0.15, T:0.36
Consensus pattern (25 bp):
TAAAAGTAGGAACTTATATAAGTTT
Found at i:66091392 original size:33 final size:33
Alignment explanation
Indices: 66091336--66091402 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
66091326 TAGTTTCTAG
* **
66091336 TATTACATGTGCAATTATACATTTTTTTTTTAA
1 TATTACATGTGCAATTACACATTTAATTTTTAA
*
66091369 TATTACATGTGCAATTACGCATTTAATTTTTAA
1 TATTACATGTGCAATTACACATTTAATTTTTAA
66091402 T
1 T
66091403 TAGTTTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.51
Consensus pattern (33 bp):
TATTACATGTGCAATTACACATTTAATTTTTAA
Found at i:66108907 original size:111 final size:111
Alignment explanation
Indices: 66108774--66108995 Score: 426
Period size: 111 Copynumber: 2.0 Consensus size: 111
66108764 ACTGTTTACT
66108774 TGTTTCCTTTGGCATCATTCATTTCATTCTTTATTCTTTGTTGGAGTGACAATTATAAGGCTCTT
1 TGTTTCCTTTGGCATCATTCATTTCATTCTTTATTCTTTGTTGGAGTGACAATTATAAGGCTCTT
*
66108839 TCTTTGAATGTAATGAAAATGATGAAATTACATGATAAAATTTTAG
66 TCTTTGAATGTAATGAAAATGATGAAATTACATGATAAAACTTTAG
66108885 TGTTTCCTTTGGCATCATTCATTTCATTCTTTATTCTTTGTTGGAGTGACAATTATAAGGCTCTT
1 TGTTTCCTTTGGCATCATTCATTTCATTCTTTATTCTTTGTTGGAGTGACAATTATAAGGCTCTT
*
66108950 TCTTTGAATGTAATGAAAATGATGAAATTACATGATAGAACTTTAG
66 TCTTTGAATGTAATGAAAATGATGAAATTACATGATAAAACTTTAG
66108996 GATCTCCCCC
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 109 1.00
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (111 bp):
TGTTTCCTTTGGCATCATTCATTTCATTCTTTATTCTTTGTTGGAGTGACAATTATAAGGCTCTT
TCTTTGAATGTAATGAAAATGATGAAATTACATGATAAAACTTTAG
Found at i:66116579 original size:16 final size:16
Alignment explanation
Indices: 66116558--66116588 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66116548 TCTCTCTCTC
66116558 TATATATACATATATG
1 TATATATACATATATG
*
66116574 TATATATGCATATAT
1 TATATATACATATAT
66116589 ATATGCTGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (16 bp):
TATATATACATATATG
Found at i:66132874 original size:24 final size:24
Alignment explanation
Indices: 66132847--66132896 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
66132837 TACATATTCA
66132847 ATAGGATATCAGTAAAACCAAGAC
1 ATAGGATATCAGTAAAACCAAGAC
66132871 ATAGGATATCAGTAAAACCAAGAC
1 ATAGGATATCAGTAAAACCAAGAC
66132895 AT
1 AT
66132897 CCAACTGCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (24 bp):
ATAGGATATCAGTAAAACCAAGAC
Found at i:66134321 original size:18 final size:17
Alignment explanation
Indices: 66134281--66134338 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
66134271 GAACTCAAAG
**
66134281 GGAAAGAAACGAAGAAA
1 GGAAAGAAAAAAAGAAA
*
66134298 -GAAAGAAGAAAAGGAAA
1 GGAAAGAA-AAAAAGAAA
66134315 GGAAAGAAAAAAAGAAA
1 GGAAAGAAAAAAAGAAA
66134332 TGGAAAG
1 -GGAAAG
66134339 GTAGGGAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
16 7 0.21
17 14 0.41
18 13 0.38
ACGTcount: A:0.67, C:0.02, G:0.29, T:0.02
Consensus pattern (17 bp):
GGAAAGAAAAAAAGAAA
Found at i:66134329 original size:23 final size:22
Alignment explanation
Indices: 66134294--66134339 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
66134284 AAGAAACGAA
*
66134294 GAAAGAAAGAAGAAAAGGAAAG
1 GAAAGAAAAAAGAAAAGGAAAG
*
66134316 GAAAGAAAAAAAGAAATGGAAAG
1 GAAAG-AAAAAAGAAAAGGAAAG
66134339 G
1 G
66134340 TAGGGAGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.02
Consensus pattern (22 bp):
GAAAGAAAAAAGAAAAGGAAAG
Found at i:66135305 original size:15 final size:15
Alignment explanation
Indices: 66135285--66135336 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
66135275 TTTAAAATTG
66135285 AATCAAATTTTACAA
1 AATCAAATTTTACAA
* *
66135300 AATCAAAATTT-CATG
1 AATCAAATTTTACA-A
* *
66135315 TATAAAATTTTACAA
1 AATCAAATTTTACAA
66135330 AATCAAA
1 AATCAAA
66135337 ATTCATATAT
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
14 2 0.07
15 23 0.85
16 2 0.07
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.33
Consensus pattern (15 bp):
AATCAAATTTTACAA
Found at i:66135325 original size:30 final size:29
Alignment explanation
Indices: 66135289--66135348 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 29
66135279 AAATTGAATC
*
66135289 AAATTTTACAAAATCAAAATTTCATGTATA
1 AAATTTTACAAAATCAAAA-TTCATATATA
66135319 AAATTTTACAAAATCAAAATTCATATATA
1 AAATTTTACAAAATCAAAATTCATATATA
66135348 A
1 A
66135349 CATTACATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.35
Consensus pattern (29 bp):
AAATTTTACAAAATCAAAATTCATATATA
Found at i:66136777 original size:23 final size:25
Alignment explanation
Indices: 66136733--66136782 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
66136723 TATTTTATAC
** *
66136733 TTTTTTTTTACTTAGAGTTTAA-AT
1 TTTTTTTTTACAAAAAGTTTAACAT
66136757 TTTTTTTTTACAAAAAG-TTAACAT
1 TTTTTTTTTACAAAAAGTTTAACAT
66136781 TT
1 TT
66136783 GTTACATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (25 bp):
TTTTTTTTTACAAAAAGTTTAACAT
Found at i:66136869 original size:14 final size:15
Alignment explanation
Indices: 66136852--66136880 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
66136842 GAGTATGGTA
66136852 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
66136866 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
66136881 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:66138088 original size:18 final size:18
Alignment explanation
Indices: 66138065--66138100 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
66138055 AGTTAAAAAA
*
66138065 TATTTTATTAATTATTTT
1 TATTTTATTAATGATTTT
66138083 TATTTTATTAATGATTTT
1 TATTTTATTAATGATTTT
66138101 ATTAATGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TATTTTATTAATGATTTT
Found at i:66139388 original size:2 final size:2
Alignment explanation
Indices: 66139375--66139426 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
66139365 NNNNNNNNNN
* *
66139375 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
66139417 AC AT AT AT AT
1 AT AT AT AT AT
66139427 GTATTCGTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:66139616 original size:16 final size:16
Alignment explanation
Indices: 66139595--66139637 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
66139585 ATATATGTAC
*
66139595 AACGTATGTAAATTAT
1 AACGTATGTAAAGTAT
*
66139611 AACGTATATAAAGTAT
1 AACGTATGTAAAGTAT
*
66139627 AGAGGTATGTA
1 A-ACGTATGTA
66139638 TATATATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.44, C:0.05, G:0.19, T:0.33
Consensus pattern (16 bp):
AACGTATGTAAAGTAT
Found at i:66140619 original size:14 final size:13
Alignment explanation
Indices: 66140596--66140632 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
66140586 GCTATTGTCC
66140596 TCTGTTTTTTTGCT
1 TCTG-TTTTTTGCT
66140610 TCTGTCTTTTTGCT
1 TCTGT-TTTTTGCT
66140624 TCTGTTTTT
1 TCTGTTTTT
66140633 GCAGGAGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.00, C:0.16, G:0.14, T:0.70
Consensus pattern (13 bp):
TCTGTTTTTTGCT
Found at i:66142765 original size:14 final size:15
Alignment explanation
Indices: 66142743--66142819 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 15
66142733 CAATCAAACA
66142743 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
66142757 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
66142772 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
66142792 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
*
66142806 ACAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
66142820 ACTGTCAATC
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 22 0.43
15 15 0.29
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:66142784 original size:20 final size:20
Alignment explanation
Indices: 66142759--66142798 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
66142749 AATATTTTCC
*
66142759 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
66142779 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
66142799 TCATTTTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:66142804 original size:34 final size:35
Alignment explanation
Indices: 66142747--66142813 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
66142737 CAAACACCAG
*
66142747 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
66142782 AAAACATTTTCCAG-AAATCATTTTACAGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
66142814 TATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:66142905 original size:14 final size:14
Alignment explanation
Indices: 66142881--66142913 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
66142871 ATTGCGGATT
66142881 TAAAT-ATTAAAAA
1 TAAATAATTAAAAA
66142894 TAAATAATTAAAAA
1 TAAATAATTAAAAA
66142908 TAAATA
1 TAAATA
66142914 GAACACATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAATAATTAAAAA
Found at i:66146454 original size:31 final size:31
Alignment explanation
Indices: 66146418--66146485 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
66146408 AAAAAAACTT
* * *
66146418 AATAGTCCATTAACTTAAATGGAAACTTTTG
1 AATAGTCCACTAACTTAAATGAAAACTTTCG
* **
66146449 AATAGTTCACTGGCTTAAATGAAAACTTTCG
1 AATAGTCCACTAACTTAAATGAAAACTTTCG
66146480 AATAGT
1 AATAGT
66146486 GTAATGACCA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (31 bp):
AATAGTCCACTAACTTAAATGAAAACTTTCG
Found at i:66147412 original size:17 final size:17
Alignment explanation
Indices: 66147379--66147412 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
66147369 AAAAAGTATT
* *
66147379 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTAAAAA
66147396 TTAAAAAAATTTAAAAA
1 TTAAAAAAATTTAAAAA
66147413 AGTATTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAAAATTTAAAAA
Found at i:66147413 original size:29 final size:29
Alignment explanation
Indices: 66147362--66147426 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
66147352 AATTAAAACA
*
66147362 AAAATTAAAAAAGTATTTTAAAAATATTTT
1 AAAATTAAAAAAG-ATTTAAAAAATATTTT
66147392 AAAATTAAAAAA-ATTTAAAAAAGTATTTT
1 AAAATTAAAAAAGATTTAAAAAA-TATTTT
66147421 AAAATT
1 AAAATT
66147427 TTTTTTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 9 0.27
29 12 0.36
30 12 0.36
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (29 bp):
AAAATTAAAAAAGATTTAAAAAATATTTT
Found at i:66147426 original size:20 final size:20
Alignment explanation
Indices: 66147401--66147474 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 20
66147391 TAAAATTAAA
66147401 AAAATTTAAAAAAGTATTTT
1 AAAATTTAAAAAAGTATTTT
** **
66147421 AAAATTTTTTTTAAAA-T-TTAA
1 AAAA---TTTAAAAAAGTATTTT
66147442 AAAATTTAAAAAAAGTATTTT
1 AAAATTT-AAAAAAGTATTTT
66147463 AAAA-TTAAAAAA
1 AAAATTTAAAAAA
66147475 ATAAAAAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 13
0.66 0.13 0.21
Matches are distributed among these distances:
18 3 0.08
19 10 0.25
20 7 0.17
21 12 0.30
22 1 0.03
23 7 0.17
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (20 bp):
AAAATTTAAAAAAGTATTTT
Found at i:66147433 original size:41 final size:41
Alignment explanation
Indices: 66147337--66147468 Score: 176
Period size: 42 Copynumber: 3.1 Consensus size: 41
66147327 ATAAATACCA
* *
66147337 AAAATTTATTTTAAAAATTAAAACAAAAATTAAAAAAGTATTTT
1 AAAATTT-TTTTTAAAATT-AAA-AAAATTTAAAAAAGTATTTT
* *
66147381 AAAA-ATATTTTAAAATTAAAAAAATTTAAAAAAGTATTTT
1 AAAATTTTTTTTAAAATTAAAAAAATTTAAAAAAGTATTTT
*
66147421 AAAATTTTTTTTAAAATTTAAAAAATTTAAAAAAAGTATTTT
1 AAAATTTTTTTTAAAATTAAAAAAATTT-AAAAAAGTATTTT
66147463 AAAATT
1 AAAATT
66147469 AAAAAAATAA
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
40 23 0.29
41 23 0.29
42 28 0.35
43 1 0.01
44 4 0.05
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (41 bp):
AAAATTTTTTTTAAAATTAAAAAAATTTAAAAAAGTATTTT
Found at i:66149199 original size:78 final size:77
Alignment explanation
Indices: 66149044--66149201 Score: 271
Period size: 77 Copynumber: 2.0 Consensus size: 77
66149034 TTAGGTGTTC
* * *
66149044 AATAATCTTGTGAATGTTGATGTTTTCTGCCTTGTATGTATTTGATTTCTTCTTCTTGTAGGTCA
1 AATAATCTTGTGAATGTTGATGTTTTCTACCTTGTATGTATGTGATTTCTTCTTCTTGTAGGCCA
66149109 ACGGTTGCATGA
66 ACGGTTGCATGA
*
66149121 AATACTCTTGTGAATGTTGATGTTTTCTACCTTGTATGTATCGTGATTTCTTCTTCTTGTAGGCC
1 AATAATCTTGTGAATGTTGATGTTTTCTACCTTGTATGTAT-GTGATTTCTTCTTCTTGTAGGCC
66149186 AACGGTTGCATGA
65 AACGGTTGCATGA
66149199 AAT
1 AAT
66149202 GAAACTGAAT
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
77 39 0.51
78 37 0.49
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.45
Consensus pattern (77 bp):
AATAATCTTGTGAATGTTGATGTTTTCTACCTTGTATGTATGTGATTTCTTCTTCTTGTAGGCCA
ACGGTTGCATGA
Found at i:66155986 original size:27 final size:28
Alignment explanation
Indices: 66155931--66155984 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
66155921 TAGAGATTGT
*
66155931 ATAAAAATTTTAAATAAATTATAAAAAG
1 ATAAAAATATTAAATAAATTATAAAAAG
*
66155959 ATAAAATATATTAAA-AATTTATAAAA
1 ATAAAA-ATATTAAATAAATTATAAAA
66155985 GAAAGCAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (28 bp):
ATAAAAATATTAAATAAATTATAAAAAG
Found at i:66159971 original size:29 final size:29
Alignment explanation
Indices: 66159934--66160001 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 29
66159924 ATAAAAAATA
* *
66159934 TATTTAATTACATTGAATCAAAGTTCATG
1 TATTAAATTACATTGAATCAAAATTCATG
* *
66159963 TATTAAATTGTACATTGGATCAAAATTCGTG
1 TATTAAA-T-TACATTGAATCAAAATTCATG
66159994 TA-TAAATT
1 TATTAAATT
66160002 TAAAATTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
28 1 0.03
29 7 0.21
30 5 0.15
31 20 0.61
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (29 bp):
TATTAAATTACATTGAATCAAAATTCATG
Found at i:66159977 original size:31 final size:30
Alignment explanation
Indices: 66159942--66160001 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
66159932 TATATTTAAT
*
66159942 TACATTGAATCAAAGTTCATGTATTAAATTG
1 TACATTGAATCAAAATTCATGTA-TAAATTG
* *
66159973 TACATTGGATCAAAATTCGTGTATAAATT
1 TACATTGAATCAAAATTCATGTATAAATT
66160002 TAAAATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (30 bp):
TACATTGAATCAAAATTCATGTATAAATTG
Found at i:66160421 original size:21 final size:21
Alignment explanation
Indices: 66160397--66160449 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
66160387 CATTGTTTCT
*
66160397 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
* * *
66160418 AATCTCACTGTTACAGTAACT
1 AATCTCACCGCTACAGTAACC
66160439 AATCTCACCGC
1 AATCTCACCGC
66160450 CACCGCTATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.34, G:0.09, T:0.26
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:66161435 original size:20 final size:20
Alignment explanation
Indices: 66161400--66161441 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
66161390 TTAGAGATTG
* *
66161400 TATAAAAATTTTAAATAAAT
1 TATAAAAATATAAAATAAAT
*
66161420 TATAAAAATATAAAATATAT
1 TATAAAAATATAAAATAAAT
66161440 TA
1 TA
66161442 AAATTTTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TATAAAAATATAAAATAAAT
Found at i:66166316 original size:14 final size:15
Alignment explanation
Indices: 66166289--66166317 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
66166279 AAGCGGCATT
66166289 AATATATCATATAAA
1 AATATATCATATAAA
66166304 AATATAT-ATATAAA
1 AATATATCATATAAA
66166318 TAAGAGCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
AATATATCATATAAA
Found at i:66169863 original size:72 final size:72
Alignment explanation
Indices: 66169780--66169916 Score: 197
Period size: 72 Copynumber: 1.9 Consensus size: 72
66169770 TGGAACTATA
* * * *
66169780 TGCATATATTTATTCGGATATTGAAATTTAGATCATATTTAAATTC-GA-ATGTCAAAATTATTA
1 TGCATACATTTATTCAGATATTAAAATTTAGATAATATTTAAATTCAGATAT-T-AAAATTATTA
66169843 TTCAATATG
64 TTCAATATG
*
66169852 TGCATACATTTATTCAGATATTAAAATTTAGATAATATTTAGATTCAGATATTAAAATTATTATT
1 TGCATACATTTATTCAGATATTAAAATTTAGATAATATTTAAATTCAGATATTAAAATTATTATT
66169917 TAAATTTCGA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
72 53 0.91
73 3 0.05
74 2 0.03
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.44
Consensus pattern (72 bp):
TGCATACATTTATTCAGATATTAAAATTTAGATAATATTTAAATTCAGATATTAAAATTATTATT
CAATATG
Found at i:66174834 original size:21 final size:21
Alignment explanation
Indices: 66174810--66174866 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
66174800 GTGTCTCTTA
*
66174810 GTCACATGGCCGTGTCCCTCC
1 GTCACATGACCGTGTCCCTCC
*
66174831 GTCACATGATCGTGTCCCTCC
1 GTCACATGACCGTGTCCCTCC
*
66174852 GTCACACGACCGTGT
1 GTCACATGACCGTGT
66174867 AGCCTGTCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.14, C:0.39, G:0.23, T:0.25
Consensus pattern (21 bp):
GTCACATGACCGTGTCCCTCC
Found at i:66177330 original size:71 final size:71
Alignment explanation
Indices: 66177218--66177386 Score: 198
Period size: 71 Copynumber: 2.4 Consensus size: 71
66177208 TGTCGCATAT
* * *
66177218 CCAACTTCAAACCAAAAGGGGG-GACATATAGCCACCAATGTCACGACAACCACCA-TCCCATGT
1 CCAACTTCAAACCAAGAGGGGGAG-CATACAACCACCAATGTCACGACAACCACCACT-CCATGT
66177281 CGCAACAC
64 CGCAACAC
* * * *
66177289 CCAACTTCAAACCTAGAGGGGGAGCATACAACCAGCGATGTCGCGACAACCACCACTCCATGTCG
1 CCAACTTCAAACCAAGAGGGGGAGCATACAACCACCAATGTCACGACAACCACCACTCCATGTCG
* * *
66177354 CGATAT
66 CAACAC
* *
66177360 CCAACTTTAAACCAAGAGAGGGAGCAT
1 CCAACTTCAAACCAAGAGGGGGAGCAT
66177387 TCAATGTTCA
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
71 81 0.98
72 2 0.02
ACGTcount: A:0.35, C:0.32, G:0.19, T:0.14
Consensus pattern (71 bp):
CCAACTTCAAACCAAGAGGGGGAGCATACAACCACCAATGTCACGACAACCACCACTCCATGTCG
CAACAC
Found at i:66195739 original size:29 final size:30
Alignment explanation
Indices: 66195707--66195765 Score: 68
Period size: 31 Copynumber: 2.0 Consensus size: 30
66195697 TCACGTGTAT
66195707 AATTACACCA-AAAT-AAAGTTCATGTATAC
1 AATTACA-CATAAATCAAAGTTCATGTATAC
* *
66195736 AATTGCACATTAAATCAAAGTTTATGTATA
1 AATTACACA-TAAATCAAAGTTCATGTATA
66195766 ATTTTAAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 2 0.08
29 6 0.24
30 4 0.16
31 13 0.52
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (30 bp):
AATTACACATAAATCAAAGTTCATGTATAC
Found at i:66196072 original size:29 final size:29
Alignment explanation
Indices: 66196040--66196097 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
66196030 TTGTTTCAAT
66196040 GTGCAATT-TCATACATG-AATTTTGATTTG
1 GTGCAATTAT-ATACATGAAATTTT-ATTTG
66196069 GTGCAATTATATACATGAAATTTTATTTG
1 GTGCAATTATATACATGAAATTTTATTTG
66196098 CTATTCAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.45
Consensus pattern (29 bp):
GTGCAATTATATACATGAAATTTTATTTG
Found at i:66198068 original size:23 final size:23
Alignment explanation
Indices: 66198042--66198086 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
66198032 ACACATGAAC
66198042 TTAAA-TTTTAAAAAGTAAAAATA
1 TTAAATTTTTAAAAA-TAAAAATA
66198065 TTAAATTTTTAAAAATAAAAAT
1 TTAAATTTTTAAAAATAAAAAT
66198087 GTAAGGACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
TTAAATTTTTAAAAATAAAAATA
Found at i:66198382 original size:20 final size:22
Alignment explanation
Indices: 66198341--66198384 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
66198331 TCGGTCATCA
*
66198341 TTAAAAATAAAGTTACTTATTT
1 TTAAAAATAAAGTTAATTATTT
66198363 TTAAAAA-AAA-TTAATTATTT
1 TTAAAAATAAAGTTAATTATTT
66198383 TT
1 TT
66198385 TGAAATTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
21 3 0.14
22 7 0.33
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TTAAAAATAAAGTTAATTATTT
Found at i:66199467 original size:209 final size:209
Alignment explanation
Indices: 66199102--66199624 Score: 951
Period size: 209 Copynumber: 2.5 Consensus size: 209
66199092 GGACCAATTA
* ** *
66199102 ATAACATTATAAAAATATAAGATCAAATTATGTTAGAAATTAAAGTATATAGATTAAATATCAAA
1 ATAATATTATAAAAATATTGGATTAAATTATGTTAGAAATTAAAGTATATAGATTAAATATCAAA
66199167 TTTAAAATATTAAAGGGACCAAAATTGATATTTAACCATTTTCTGTAAAATGCAAAAAGAAGGAA
66 TTTAAAATATTAAAGGGACCAAAATTGATATTTAACCATTTTCTGTAAAATGCAAAAAGAAGGAA
66199232 AAATTGTTGATAGGCCACGTGTTAACTAAAGGAAGGTCCTTTGACCTTTCTTTTATATAGAGGTA
131 AAATTGTTGATAGGCCACGTGTTAACTAAAGGAAGGTCCTTTGACCTTTCTTTTATATAGAGGTA
66199297 TATAGGACTAATCG
196 TATAGGACTAATCG
66199311 ATAATATTATAAAAATATTGGATTAAATTATGTTAGAAATTAAAGTATATAGATTAAATATCAAA
1 ATAATATTATAAAAATATTGGATTAAATTATGTTAGAAATTAAAGTATATAGATTAAATATCAAA
66199376 TTTAAAATATTAAAGGGACCAAAATTGATATTTAACCATTTTCTGTAAAATGCAAAAAGAAGGAA
66 TTTAAAATATTAAAGGGACCAAAATTGATATTTAACCATTTTCTGTAAAATGCAAAAAGAAGGAA
66199441 AAATTGTTGATAGGCCACGTGTTAACTAAAGGAAGGTCCTTTGACCTTTCTTTTATATAGAGGTA
131 AAATTGTTGATAGGCCACGTGTTAACTAAAGGAAGGTCCTTTGACCTTTCTTTTATATAGAGGTA
66199506 TATAGGACTAATCG
196 TATAGGACTAATCG
66199520 ATAATATTATAAAAATATTGGATTAAATTATGTTAGAAATTAAAGTATATAGATTAAATATCAAA
1 ATAATATTATAAAAATATTGGATTAAATTATGTTAGAAATTAAAGTATATAGATTAAATATCAAA
* * * * *
66199585 TTTAAGATATTAGAGGGGCC-AAACTAATATTTAA-CATTTT
66 TTTAAAATATTAAAGGGACCAAAATTGATATTTAACCATTTT
66199625 TTTTTGTAAT
Statistics
Matches: 305, Mismatches: 9, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
207 6 0.02
208 12 0.04
209 287 0.94
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (209 bp):
ATAATATTATAAAAATATTGGATTAAATTATGTTAGAAATTAAAGTATATAGATTAAATATCAAA
TTTAAAATATTAAAGGGACCAAAATTGATATTTAACCATTTTCTGTAAAATGCAAAAAGAAGGAA
AAATTGTTGATAGGCCACGTGTTAACTAAAGGAAGGTCCTTTGACCTTTCTTTTATATAGAGGTA
TATAGGACTAATCG
Found at i:66202469 original size:16 final size:17
Alignment explanation
Indices: 66202448--66202480 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
66202438 ATACCTTGCA
66202448 TAACAAA-ATAAATATT
1 TAACAAATATAAATATT
*
66202464 TAACAAATATAATTATT
1 TAACAAATATAAATATT
66202481 CAATTTATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (17 bp):
TAACAAATATAAATATT
Found at i:66205828 original size:12 final size:12
Alignment explanation
Indices: 66205796--66205830 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
66205786 ATTTGAGATG
66205796 ATATATATATGT
1 ATATATATATGT
*
66205808 ATGTATATATGT
1 ATATATATATGT
*
66205820 ATATGTATATG
1 ATATATATATG
66205831 ATGCTGATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (12 bp):
ATATATATATGT
Found at i:66206822 original size:60 final size:61
Alignment explanation
Indices: 66206729--66206851 Score: 221
Period size: 60 Copynumber: 2.0 Consensus size: 61
66206719 TCATATATAT
* *
66206729 TTCCTTATTTATTTATGGCATAATGACTTATTTGGTCTTCCAACTTTATAA-CAAAAATCA
1 TTCCTTATTTATTTATGGCATAATGACTTATTTGGCCTTCCAACTTTATAAGAAAAAATCA
66206789 TTCCTTATTTATTTATGGCATAATGACTTATTTGGCCTTCCAACTTTATAAGAAAAAATCA
1 TTCCTTATTTATTTATGGCATAATGACTTATTTGGCCTTCCAACTTTATAAGAAAAAATCA
66206850 TT
1 TT
66206852 TTAGTCCTCC
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
60 50 0.83
61 10 0.17
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (61 bp):
TTCCTTATTTATTTATGGCATAATGACTTATTTGGCCTTCCAACTTTATAAGAAAAAATCA
Found at i:66209702 original size:27 final size:28
Alignment explanation
Indices: 66209672--66209738 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 28
66209662 GTATAGGATG
* *
66209672 ATTTTAAAATAATTATTATATAAAA-CA
1 ATTTTAAAATAATAAGTATATAAAAGCA
** *
66209699 A-TTTGGAATAA-AAGTATATAAAAGTA
1 ATTTTAAAATAATAAGTATATAAAAGCA
66209725 ATTTTAAAATAATA
1 ATTTTAAAATAATA
66209739 TGTAACGACA
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
25 10 0.33
26 10 0.33
27 9 0.30
28 1 0.03
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.37
Consensus pattern (28 bp):
ATTTTAAAATAATAAGTATATAAAAGCA
Found at i:66210719 original size:9 final size:9
Alignment explanation
Indices: 66210707--66210774 Score: 84
Period size: 9 Copynumber: 7.4 Consensus size: 9
66210697 AAATAAAAAA
66210707 AATTCGGGT
1 AATTCGGGT
66210716 AATTCGGGT
1 AATTCGGGT
*
66210725 ATTTTTC-GGT
1 A--ATTCGGGT
*
66210735 AATTCGGTT
1 AATTCGGGT
*
66210744 AATTCGGTT
1 AATTCGGGT
66210753 AATTCGGGT
1 AATTCGGGT
66210762 AATTCGGGT
1 AATTCGGGT
66210771 AATT
1 AATT
66210775 TTTAACCAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
8 3 0.06
9 42 0.81
10 4 0.08
11 3 0.06
ACGTcount: A:0.22, C:0.10, G:0.26, T:0.41
Consensus pattern (9 bp):
AATTCGGGT
Found at i:66210952 original size:12 final size:12
Alignment explanation
Indices: 66210935--66210959 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66210925 AGTAATTTCG
66210935 GGTCGGTTAACC
1 GGTCGGTTAACC
66210947 GGTCGGTTAACC
1 GGTCGGTTAACC
66210959 G
1 G
66210960 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:66212712 original size:26 final size:26
Alignment explanation
Indices: 66212653--66212712 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
66212643 AAAAGAATTC
* *
66212653 AATATTTTATTTATATATTAATTTAA
1 AATATTTTATCTAAATATTAATTTAA
** *
66212679 AACCTTTTATCTAAATTTTAATTTAA
1 AATATTTTATCTAAATATTAATTTAA
*
66212705 TATATTTT
1 AATATTTT
66212713 TAAATGAATT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (26 bp):
AATATTTTATCTAAATATTAATTTAA
Found at i:66223273 original size:26 final size:27
Alignment explanation
Indices: 66223234--66223295 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
66223224 TTTAAAATAC
* *
66223234 TTTTAAAATAATTTTTTTATTTTTTAT
1 TTTTAAAATAATTTTTTTAATGTTTAT
66223261 TTTTAAAAT-ATTTTTTTAATGTTTAT
1 TTTTAAAATAATTTTTTTAATGTTTAT
*
66223287 TTTAAAAAT
1 TTTTAAAAT
66223296 GGGCCGGGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 23 0.72
27 9 0.28
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTTAAAATAATTTTTTTAATGTTTAT
Found at i:66226351 original size:2 final size:2
Alignment explanation
Indices: 66226344--66226378 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
66226334 TATCTTTTTC
66226344 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
66226379 ACTCACTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:66233671 original size:25 final size:25
Alignment explanation
Indices: 66233643--66233696 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
66233633 AAAGTTCAAA
66233643 ATATTTATAAAAAA-ATCTAAAATTT
1 ATATTTATAAAAAATATCT-AAATTT
* *
66233668 ATATTTTTAAAAAATTTCTAAATTT
1 ATATTTATAAAAAATATCTAAATTT
66233693 ATAT
1 ATAT
66233697 ATAAATTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 23 0.88
26 3 0.12
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (25 bp):
ATATTTATAAAAAATATCTAAATTT
Found at i:66240146 original size:29 final size:29
Alignment explanation
Indices: 66240117--66240173 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
66240107 ATTTAAATAT
*
66240117 TTTTCT-AT-TTTTTTTTCATATTTTTATA
1 TTTTCTAATATTTTCTTT-ATATTTTTATA
66240145 TTTTCTAATATTTTCTTTATATTTTTATA
1 TTTTCTAATATTTTCTTTATATTTTTATA
66240174 ATAATTGGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 6 0.23
29 13 0.50
30 7 0.27
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (29 bp):
TTTTCTAATATTTTCTTTATATTTTTATA
Found at i:66245312 original size:25 final size:24
Alignment explanation
Indices: 66245263--66245328 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 24
66245253 TAAATAATAA
66245263 TCCAAACAAATTAAACATAGCAAT
1 TCCAAACAAATTAAACATAGCAAT
* *
66245287 TGCACAACAACTTAAACATAAG-AAT
1 TCCA-AACAAATTAAACAT-AGCAAT
66245312 TCCAAACAAATTCAAAC
1 TCCAAACAAATT-AAAC
66245329 TTCCGTAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 10 0.29
25 23 0.66
26 2 0.06
ACGTcount: A:0.53, C:0.23, G:0.05, T:0.20
Consensus pattern (24 bp):
TCCAAACAAATTAAACATAGCAAT
Found at i:66248826 original size:21 final size:20
Alignment explanation
Indices: 66248786--66248847 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 20
66248776 TGAATATGCC
66248786 AACAGAAGCTCGAA-AGCTA
1 AACAGAAGCTCGAAGAGCTA
66248805 AACAGAAGCTCAGAAGAGCTA
1 AACAGAAGCTC-GAAGAGCTA
66248826 AACAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCG-AAGAGCTA
66248847 A
1 A
66248848 TCCACCTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 11 0.28
20 4 0.10
21 25 0.62
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.11
Consensus pattern (20 bp):
AACAGAAGCTCGAAGAGCTA
Found at i:66252060 original size:45 final size:45
Alignment explanation
Indices: 66252033--66252381 Score: 585
Period size: 45 Copynumber: 7.8 Consensus size: 45
66252023 ATTTGATTCA
* * *
66252033 TGATGCCATAGCGTCTTTCAG-CTATGGTCTTACTTGATAGAATTG
1 TGATGCCATAACGTCTTTCAGTC-ATGGTCTTACTCGATAGAATCG
*
66252078 TGATGCTATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
66252123 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
66252168 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
66252213 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
*
66252258 TGATGCCATAACATCTTTCAGTCATGGTCTTACTCGATAGAATCG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
* *
66252303 TGATGCCATAATGTCTTTCAGGCATGGTCTTACTC-ATTAGAATCG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGA-TAGAATCG
**
66252348 TGATGCCATAACACCTTTCAGTCATGGTCTTACT
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACT
66252382 TGTTTCTAGT
Statistics
Matches: 289, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
44 1 0.00
45 287 0.99
46 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (45 bp):
TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
Found at i:66255903 original size:2 final size:2
Alignment explanation
Indices: 66255890--66255921 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
66255880 TTCAAAATGC
*
66255890 AT AT 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
66255922 GTTATATGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:66261715 original size:27 final size:27
Alignment explanation
Indices: 66261677--66261730 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
66261667 TTGCTTTGTA
*
66261677 ACACCGTTAAATATACATAGCAGAAAT
1 ACACCGTTAAATATACACAGCAGAAAT
*
66261704 ACACTGTTAAATATACACAGCAGAAAT
1 ACACCGTTAAATATACACAGCAGAAAT
66261731 CATAATTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.48, C:0.19, G:0.11, T:0.22
Consensus pattern (27 bp):
ACACCGTTAAATATACACAGCAGAAAT
Found at i:66270590 original size:21 final size:19
Alignment explanation
Indices: 66270566--66270614 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 19
66270556 AAATAAACAT
66270566 TAAAAAATTATTTTTAAAAAA
1 TAAAAAATTA-TTTT-AAAAA
*
66270587 TAAAAAAATTATTTTAAAAT
1 T-AAAAAATTATTTTAAAAA
66270607 TAAAAAAT
1 TAAAAAAT
66270615 AAAAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 7 0.27
20 5 0.19
21 5 0.19
22 9 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAAAAATTATTTTAAAAA
Found at i:66270595 original size:22 final size:20
Alignment explanation
Indices: 66270567--66270613 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 20
66270557 AATAAACATT
66270567 AAAAAATTATTTTTAAAAAATA
1 AAAAAATTA-TTTT-AAAAATA
*
66270589 AAAAAATTATTTTAAAATTA
1 AAAAAATTATTTTAAAAATA
66270609 AAAAA
1 AAAAA
66270614 TAAAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 11 0.46
21 4 0.17
22 9 0.38
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAAATTATTTTAAAAATA
Found at i:66272623 original size:19 final size:20
Alignment explanation
Indices: 66272573--66272617 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
66272563 ACCATACTAA
*
66272573 TATTAATAATTTT--AGATT
1 TATTAATACTTTTAAAGATT
66272591 TATTAATACTTTTAAAGATT
1 TATTAATACTTTTAAAGATT
66272611 T-TTAATA
1 TATTAATA
66272618 TATTTATGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 12 0.50
19 6 0.25
20 6 0.25
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (20 bp):
TATTAATACTTTTAAAGATT
Found at i:66285504 original size:40 final size:40
Alignment explanation
Indices: 66285449--66285541 Score: 168
Period size: 40 Copynumber: 2.3 Consensus size: 40
66285439 TCATGTCACG
66285449 TCAGCAAATCGCGTCCTAGAGGGCGCTATTTGTGTCCACA
1 TCAGCAAATCGCGTCCTAGAGGGCGCTATTTGTGTCCACA
* *
66285489 TCAGCAAATCGCGTCCTAGAGGGTGCTATTTGTGTCCACG
1 TCAGCAAATCGCGTCCTAGAGGGCGCTATTTGTGTCCACA
66285529 TCAGCAAATCGCG
1 TCAGCAAATCGCG
66285542 CTGGCGTGGG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.25
Consensus pattern (40 bp):
TCAGCAAATCGCGTCCTAGAGGGCGCTATTTGTGTCCACA
Found at i:66288109 original size:133 final size:133
Alignment explanation
Indices: 66287871--66288117 Score: 413
Period size: 133 Copynumber: 1.9 Consensus size: 133
66287861 GGTACATGAG
*
66287871 TTAAGCATGACTATTTTGTAAATTATGTGTGTTATACTTATTTTATTATCTATTTTGATAAGCTA
1 TTAAGCATGACTATTTTGTAAATCATGTGTGTTATACTTATTTTATTATCTATTTTGATAAGCTA
*
66287936 ATTGATTCAATTGTGTAATATGAACATATGATATTATGATTCTGCATGTCCATGTACATTGGGGT
66 ATTGATTCAATTATGTAATATGAACATATGATATTATGATTCTGCATGTCCATGTACATTGGGGT
66288001 GAA
131 GAA
* *
66288004 TTAAGCATGACTATTTTGTAAATCATGTGTGTTATACTTATTTTGTTATCTGTTTTGATAAGCTA
1 TTAAGCATGACTATTTTGTAAATCATGTGTGTTATACTTATTTTATTATCTATTTTGATAAGCTA
* * * * *
66288069 TTTGGTTCAATTATGTAATATGAATATCTGATATTATGATTTTGCATGT
66 ATTGATTCAATTATGTAATATGAACATATGATATTATGATTCTGCATGT
66288118 GCATTGGGCT
Statistics
Matches: 105, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
133 105 1.00
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.47
Consensus pattern (133 bp):
TTAAGCATGACTATTTTGTAAATCATGTGTGTTATACTTATTTTATTATCTATTTTGATAAGCTA
ATTGATTCAATTATGTAATATGAACATATGATATTATGATTCTGCATGTCCATGTACATTGGGGT
GAA
Found at i:66291055 original size:192 final size:192
Alignment explanation
Indices: 66290728--66291101 Score: 622
Period size: 192 Copynumber: 1.9 Consensus size: 192
66290718 GATAAATGTG
* *
66290728 GCTTAATGGAGTTTCCTAAGCCTAGGCCTCCCCATGCTTCTTGCAACTCTCTCTCCCTTGCTTCT
1 GCTTAATGGAGTTTCCTAAGCCTAAGCCGCCCCATGCTTCTTGCAACTCTCTCTCCCTTGCTTCT
* * *
66290793 CTACGAGATACAGAGAATCTAATCTGCTCACTTGGTTGCTCAGAAGTAGCCATCTTCTCTTTTTC
66 CTACGAGATACAGAGAATCTAATCTGCTCACTTGCTTGCTCAGAACTAGCCATCTTCTCTTTCTC
* *
66290858 TAATTTTGATTTGTGTTTAACTAAAATTTGGTCCAGACTACCCTGATCATCCGCCACCTGTT
131 TAATTTTGATTTGTGTTTAACCAAAATTTGATCCAGACTACCCTGATCATCCGCCACCTGTT
*
66290920 GCTTAATGGAGTTTCCTAAGCTTAAGCCGCCCCATGCTTCTTGCAACTCTCTCTCCCTTGCTTCT
1 GCTTAATGGAGTTTCCTAAGCCTAAGCCGCCCCATGCTTCTTGCAACTCTCTCTCCCTTGCTTCT
* * * * * *
66290985 CTACGAGATACAGATAATCTAATTTGCTCGCTTGCTTGCTCAGAACTTGTCATTTTCTCTTTCTC
66 CTACGAGATACAGAGAATCTAATCTGCTCACTTGCTTGCTCAGAACTAGCCATCTTCTCTTTCTC
66291050 TAATTTTGATTTGTGTTTAACCAAAATTTGATCCAGACTACCCTGATCATCC
131 TAATTTTGATTTGTGTTTAACCAAAATTTGATCCAGACTACCCTGATCATCC
66291102 ACTTGTGGCA
Statistics
Matches: 168, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
192 168 1.00
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (192 bp):
GCTTAATGGAGTTTCCTAAGCCTAAGCCGCCCCATGCTTCTTGCAACTCTCTCTCCCTTGCTTCT
CTACGAGATACAGAGAATCTAATCTGCTCACTTGCTTGCTCAGAACTAGCCATCTTCTCTTTCTC
TAATTTTGATTTGTGTTTAACCAAAATTTGATCCAGACTACCCTGATCATCCGCCACCTGTT
Found at i:66295308 original size:13 final size:13
Alignment explanation
Indices: 66295269--66295319 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
66295259 AGTTCTTCAT
66295269 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
66295282 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
66295295 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
66295308 TGCTTTTGAAAA
1 TGCTTTTGAAAA
66295320 ATTTGAGTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:66297776 original size:108 final size:109
Alignment explanation
Indices: 66297600--66297816 Score: 427
Period size: 108 Copynumber: 2.0 Consensus size: 109
66297590 GTAAAGTAAC
66297600 CAACCCAAAAGCACTTTTTTGCTGAAAAGCTAAAAAAATCTACTTTTCATCTGCCCAAAAGTCCT
1 CAACCCAAAAGCACTTTTTTGCTGAAAAGCTAAAAAAATCTACTTTTCATCTGCCCAAAAGTCCT
66297665 TCTAAGAAGCTGATATTTTGCTATCAAATGAA-GGTGTTCTCCA
66 TCTAAGAAGCTGATATTTTGCTATCAAATGAAGGGTGTTCTCCA
66297708 CAACCCAAAAGCACTTTTTTGCTGAAAAGCTAAAAAAATCTACTTTTCATCTGCCCAAAAGTCCT
1 CAACCCAAAAGCACTTTTTTGCTGAAAAGCTAAAAAAATCTACTTTTCATCTGCCCAAAAGTCCT
66297773 TCTAAGAAGCTGATATTTTGCTATCAAATGAAGGGTGTTCTCCA
66 TCTAAGAAGCTGATATTTTGCTATCAAATGAAGGGTGTTCTCCA
66297817 TTGCTTTTCA
Statistics
Matches: 108, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
108 97 0.90
109 11 0.10
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.30
Consensus pattern (109 bp):
CAACCCAAAAGCACTTTTTTGCTGAAAAGCTAAAAAAATCTACTTTTCATCTGCCCAAAAGTCCT
TCTAAGAAGCTGATATTTTGCTATCAAATGAAGGGTGTTCTCCA
Found at i:66298445 original size:4 final size:4
Alignment explanation
Indices: 66298436--66298472 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
66298426 CTTTTATTAT
*
66298436 TTTC TTTC TTTC TTTC -TT- TTTC TTTC TTTA TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
66298473 TCATTTTCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 4 0.14
4 25 0.86
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:66298458 original size:18 final size:18
Alignment explanation
Indices: 66298435--66298473 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
66298425 TCTTTTATTA
*
66298435 TTTTCTTTCTTTCTTTCT
1 TTTTCTTTCTTTATTTCT
66298453 TTTTCTTTCTTTATTTCT
1 TTTTCTTTCTTTATTTCT
66298471 TTT
1 TTT
66298474 CATTTTCCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTCTTTCTTTATTTCT
Found at i:66298527 original size:21 final size:21
Alignment explanation
Indices: 66298459--66298527 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
66298449 TTCTTTTTCT
*
66298459 TTCTTTATTT-CTTTTCATTTTC
1 TTCTCTATTTCCTTTTCA--TTC
* * *
66298481 CTCTTCTATTTTCTTTTCATTT
1 TTC-TCTATTTCCTTTTCATTC
66298503 TTCTCTATTTCCTTTTTC-TTC
1 TTCTCTATTTCC-TTTTCATTC
66298524 TTCT
1 TTCT
66298528 TCTAACCCTA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
21 14 0.37
22 11 0.29
23 6 0.16
24 7 0.18
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (21 bp):
TTCTCTATTTCCTTTTCATTC
Found at i:66299821 original size:2 final size:2
Alignment explanation
Indices: 66299814--66299838 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
66299804 TTTATATTTC
66299814 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
66299839 GNNNNNNNNN
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:66306673 original size:18 final size:18
Alignment explanation
Indices: 66306650--66306699 Score: 84
Period size: 17 Copynumber: 2.8 Consensus size: 18
66306640 TAATAAATAA
66306650 AATTATCCAACCCAACCC
1 AATTATCCAACCCAACCC
66306668 AATTAT-CAACCCAACCC
1 AATTATCCAACCCAACCC
*
66306685 AATTACCCAACCCAA
1 AATTATCCAACCCAA
66306700 TAAAACTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 16 0.53
18 14 0.47
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.16
Consensus pattern (18 bp):
AATTATCCAACCCAACCC
Found at i:66306694 original size:13 final size:13
Alignment explanation
Indices: 66306676--66306700 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66306666 CCAATTATCA
66306676 ACCCAACCCAATT
1 ACCCAACCCAATT
66306689 ACCCAACCCAAT
1 ACCCAACCCAAT
66306701 AAAACTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:66306751 original size:36 final size:39
Alignment explanation
Indices: 66306685--66306756 Score: 105
Period size: 36 Copynumber: 1.9 Consensus size: 39
66306675 AACCCAACCC
* *
66306685 AATTACCCAACCCAATAAAACTAAAACTAAAGTCTACCA
1 AATTACCCAACCCAATAAAACAAAAACTAAAATCTACCA
66306724 AATTA-CCAACCCAA-AAAA-AAAAACTAAAATCTA
1 AATTACCCAACCCAATAAAACAAAAACTAAAATCTA
66306757 ACTCTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 13 0.42
37 4 0.13
38 9 0.29
39 5 0.16
ACGTcount: A:0.57, C:0.25, G:0.01, T:0.17
Consensus pattern (39 bp):
AATTACCCAACCCAATAAAACAAAAACTAAAATCTACCA
Found at i:66306914 original size:17 final size:17
Alignment explanation
Indices: 66306894--66306956 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
66306884 TAATTTCAAG
66306894 AATTATGTAATGTTTTT
1 AATTATGTAATGTTTTT
* ***
66306911 AATTATGTAGTGATTCAA
1 AATTATGTAATG-TTTTT
*
66306929 AGACTTATGTAATATTTTT
1 A-A-TTATGTAATGTTTTT
66306948 AATTATGTA
1 AATTATGTA
66306957 GTGATTCAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 18 0.53
18 4 0.12
19 4 0.12
20 8 0.24
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.49
Consensus pattern (17 bp):
AATTATGTAATGTTTTT
Found at i:66306918 original size:37 final size:37
Alignment explanation
Indices: 66306891--66306965 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
66306881 TGTTAATTTC
* *
66306891 AAGAATTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
* *
66306928 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
66306965 A
1 A
66306966 TTCGGGTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (37 bp):
AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
Found at i:66306981 original size:9 final size:9
Alignment explanation
Indices: 66306964--66307020 Score: 62
Period size: 9 Copynumber: 6.4 Consensus size: 9
66306954 GTAGTGATTC
66306964 AATTCGGGT
1 AATTCGGGT
*
66306973 AATTTGGGT
1 AATTCGGGT
66306982 AATTCGGGT
1 AATTCGGGT
*
66306991 AATTCGGTT
1 AATTCGGGT
* *
66307000 AA-TCAGTT
1 AATTCGGGT
*
66307008 AATTCGGTT
1 AATTCGGGT
66307017 AATT
1 AATT
66307021 TTTAACCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
8 7 0.17
9 35 0.83
ACGTcount: A:0.26, C:0.09, G:0.25, T:0.40
Consensus pattern (9 bp):
AATTCGGGT
Found at i:66307002 original size:18 final size:18
Alignment explanation
Indices: 66306964--66307020 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
66306954 GTAGTGATTC
* *
66306964 AATTCGGGTAATTTGGGT
1 AATTCGGGTAATTCGGTT
66306982 AATTCGGGTAATTCGGTT
1 AATTCGGGTAATTCGGTT
* *
66307000 AA-TCAGTTAATTCGGTT
1 AATTCGGGTAATTCGGTT
66307017 AATT
1 AATT
66307021 TTTAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 15 0.44
18 19 0.56
ACGTcount: A:0.26, C:0.09, G:0.25, T:0.40
Consensus pattern (18 bp):
AATTCGGGTAATTCGGTT
Found at i:66307103 original size:27 final size:27
Alignment explanation
Indices: 66307073--66307129 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
66307063 TTAACCGACC
66307073 TAATTAACCGAAAAATTTCGGTTCGGT
1 TAATTAACCGAAAAATTTCGGTTCGGT
*****
66307100 TAATTTTTTTAAAAATTTCGGTTCGGT
1 TAATTAACCGAAAAATTTCGGTTCGGT
66307127 TAA
1 TAA
66307130 CGGCTAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.42
Consensus pattern (27 bp):
TAATTAACCGAAAAATTTCGGTTCGGT
Found at i:66325363 original size:21 final size:21
Alignment explanation
Indices: 66325338--66325388 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
66325328 TCTTTTTCCA
66325338 AAACCACTTAACATTAGGACC
1 AAACCACTTAACATTAGGACC
* *
66325359 AAACCATTTAACTTTAGGACC
1 AAACCACTTAACATTAGGACC
66325380 AAACCACTT
1 AAACCACTT
66325389 GTACTTAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.24
Consensus pattern (21 bp):
AAACCACTTAACATTAGGACC
Found at i:66327671 original size:18 final size:19
Alignment explanation
Indices: 66327644--66327684 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
66327634 TTAAACCCTT
66327644 AAAAATCCCT-AACCTTAAC
1 AAAAATCCCTAAACC-TAAC
66327663 AAAAA-CCCTAAACCTAAC
1 AAAAATCCCTAAACCTAAC
66327681 AAAA
1 AAAA
66327685 TTAAAAAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (19 bp):
AAAAATCCCTAAACCTAAC
Found at i:66329983 original size:86 final size:87
Alignment explanation
Indices: 66329883--66330056 Score: 341
Period size: 86 Copynumber: 2.0 Consensus size: 87
66329873 GATCTGATTA
66329883 ATCTAAAATATTATCTATATTAATATATATATTTAATGGGTAATTTTTTTACATAAAATAAATAG
1 ATCTAAAATATTATCTATATTAATATATATATTTAATGGGTAATTTTTTTACATAAAATAAATAG
66329948 TTAAA-TTTTTTAATTTATGTC
66 TTAAATTTTTTTAATTTATGTC
66329969 ATCTAAAATATTATCTATATTAATATATATATTTAATGGGTAATTTTTTTACATAAAATAAATAG
1 ATCTAAAATATTATCTATATTAATATATATATTTAATGGGTAATTTTTTTACATAAAATAAATAG
66330034 TTAAATTTTTTTAATTTATGTC
66 TTAAATTTTTTTAATTTATGTC
66330056 A
1 A
66330057 AACTTGACAT
Statistics
Matches: 87, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
86 70 0.80
87 17 0.20
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.49
Consensus pattern (87 bp):
ATCTAAAATATTATCTATATTAATATATATATTTAATGGGTAATTTTTTTACATAAAATAAATAG
TTAAATTTTTTTAATTTATGTC
Found at i:66341173 original size:20 final size:22
Alignment explanation
Indices: 66341129--66341176 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
66341119 TTTGAAATAG
**
66341129 TTAAAAATTTTAGAACTTTGTT
1 TTAAAAATTTTAGAACTTTCCT
66341151 TTAAAAA-TTTA-AACTTTCCT
1 TTAAAAATTTTAGAACTTTCCT
66341171 TTAAAA
1 TTAAAA
66341177 TGACTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 13 0.54
21 4 0.17
22 7 0.29
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (22 bp):
TTAAAAATTTTAGAACTTTCCT
Found at i:66341364 original size:155 final size:150
Alignment explanation
Indices: 66341095--66341680 Score: 613
Period size: 155 Copynumber: 3.9 Consensus size: 150
66341085 AAATCATTAA
* * * ** * * *
66341095 TTTTCTTAAAAATCAAAAC-CTTATTTTGAAATAGTT-AAAAATTTTAGAACTTTGTTTTAAAAA
1 TTTTCTTAAAAATTAAAACTTTTACTTTGAAATAGTTAAAAAAAATCAAAACTTTATTTTAAAAA
* * *
66341158 TTTAAACTTTCCTTTAAAATGACTTAAAAAATAGATTTTTATTTTTCAAAATCTAAACTTTCTCT
66 TTTAAACTTTCCTTTAAAATAAC-TAAAAAATAAATTATTATTTTTCAAAATCTAAACTTTCT-T
*
66341223 CTTTTTTTATTATTAAAAAACACCA-
129 C--TTTTTATTA--AAAAAACACTAT
* * * * *
66341248 TTTTCTTAAAAATTAAAGCTTTTTATTTTGAAGTAGTT-AAAAAAATCAAAATTTTGTTTTAAAA
1 TTTTCTTAAAAATTAAAAC-TTTTACTTTGAAATAGTTAAAAAAAATCAAAACTTTATTTTAAAA
* * *
66341312 ATTTAAACTTTCCTCTAAAATAATTAAAAAATCAAATTTTTATTTTTCAAAATCTAAACTTTC-T
65 ATTTAAACTTTCCTTTAAAATAACTAAAAAAT-AAATTATTATTTTTCAAAATCTAAACTTTCTT
*
66341376 C---CT-TTAAAAAAACACTAT
129 CTTTTTATTAAAAAAACACTAT
** *
66341394 TTTTCTTAAGGATTAAAGCTTTTACTTTGAAATAGTTGAAAAAAAAATCAAAACTTTATTTTAAA
1 TTTTCTTAAAAATTAAAACTTTTACTTTGAAATAGTT--AAAAAAAATCAAAACTTTATTTTAAA
* * *
66341459 ATTTTAAACTTTCTTTTAAAATAACTAAAAAA-AAA-AATTATTTTTCAAAATCTAAACTTTCTT
64 AATTTAAACTTTCCTTTAAAATAACTAAAAAATAAATTATTATTTTTCAAAATCTAAACTTTCTT
** ** *
66341522 -TTTAAAAAAAAAAAACATTAT
129 CTTTTTATTAAAAAAACACTAT
*
66341543 TTTTCTTAAAGATTAAAACTTTTACTTTGAAATAGTTGAAAAGAAAATCAAAACTTTATTTTAAA
1 TTTTCTTAAAAATTAAAACTTTTACTTTGAAATAGTT-AAAA-AAAATCAAAACTTTATTTTAAA
*
66341608 AATTTAAAC-TTCTCTTTAAAATAACTAAAAAAACATATTATTATTATTTTTTCAAAATCTAAAC
64 AATTTAAACTTTC-CTTTAAAATAACT--AAAAA-ATA-AATTATTA-TTTTTCAAAATCTAAAC
66341672 TTTCTTCTT
123 TTTCTTCTT
66341681 AAAAAACAAA
Statistics
Matches: 372, Mismatches: 39, Indels: 40
0.82 0.09 0.09
Matches are distributed among these distances:
145 50 0.13
146 21 0.06
147 3 0.01
148 59 0.16
149 89 0.24
151 5 0.01
152 1 0.00
153 20 0.05
154 9 0.02
155 90 0.24
156 23 0.06
157 2 0.01
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.42
Consensus pattern (150 bp):
TTTTCTTAAAAATTAAAACTTTTACTTTGAAATAGTTAAAAAAAATCAAAACTTTATTTTAAAAA
TTTAAACTTTCCTTTAAAATAACTAAAAAATAAATTATTATTTTTCAAAATCTAAACTTTCTTCT
TTTTATTAAAAAAACACTAT
Found at i:66341579 original size:149 final size:149
Alignment explanation
Indices: 66341095--66341703 Score: 598
Period size: 149 Copynumber: 4.0 Consensus size: 149
66341085 AAATCATTAA
* * * ** * * *
66341095 TTTTCTTAAAAATCAAAAC-CTTATTTTGAAATAGTTAAAAATTTTAGAACTTTGTTTTAAAAAT
1 TTTTCTTAAAAATTAAAACTTTTACTTTGAAATAGTTAAAAAAATCAAAACTTTATTTTAAAAAT
* * **
66341159 TTAAACTTTCCTTTAAAATGACTTAAAAAATA-GATTTTTATTTTTCAAAATCTAAACTTTCTCT
66 TTAAACTTTCCTTTAAAATAAC-TAAAAAATACAATAATTATTTTTCAAAATCTAAAC--T-T-T
** ** *
66341223 CTTTTTTTATTATTAAAAAACACCA-
126 C--TTTTTAAAAAAAAAAAACACTAT
* * * * *
66341248 TTTTCTTAAAAATTAAAGCTTTTTATTTTGAAGTAGTTAAAAAAATCAAAATTTTGTTTTAAAAA
1 TTTTCTTAAAAATTAAAAC-TTTTACTTTGAAATAGTTAAAAAAATCAAAACTTTATTTTAAAAA
* * **
66341313 TTTAAACTTTCCTCTAAAATAATTAAAAAAT-CAAATTTTTATTTTTCAAAATCTAAACTTTCTC
65 TTTAAACTTTCCTTTAAAATAACTAAAAAATAC-AATAATTATTTTTCAAAATCTAAACTTTCT-
*
66341377 CTTT-----AAAAAAACACTAT
128 TTTTAAAAAAAAAAAACACTAT
** *
66341394 TTTTCTTAAGGATTAAAGCTTTTACTTTGAAATAGTTGAAAAAAAAATCAAAACTTTATTTTAAA
1 TTTTCTTAAAAATTAAAACTTTTACTTTGAAATAGTT---AAAAAAATCAAAACTTTATTTTAAA
* *
66341459 ATTTTAAACTTTCTTTTAAAATAACTAAAAAA-A-AA-AATTATTTTTCAAAATCTAAACTTTCT
63 AATTTAAACTTTCCTTTAAAATAACTAAAAAATACAATAATTATTTTTCAAAATCTAAACTTTCT
*
66341521 TTTTAAAAAAAAAAAACATTAT
128 TTTTAAAAAAAAAAAACACTAT
*
66341543 TTTTCTTAAAGATTAAAACTTTTACTTTGAAATAGTTGAAAAGAAAATCAAAACTTTATTTTAAA
1 TTTTCTTAAAAATTAAAACTTTTACTTTGAAATAGTT--AAA-AAAATCAAAACTTTATTTTAAA
66341608 AATTTAAAC-TTCTCTTTAAAATAACTAAAAAA-ACATATTATTATTATTTTTTCAAAATCTAAA
63 AATTTAAACTTTC-CTTTAAAATAACTAAAAAATACA-A-TA--ATTA-TTTTTCAAAATCTAAA
* *
66341671 CTTTCTTCTTAAAAAACAAAAACACTAT
122 CTTTCTTTTTAAAAAAAAAAAACACTAT
66341699 TTTTC
1 TTTTC
66341704 CCAAAATCAA
Statistics
Matches: 394, Mismatches: 38, Indels: 45
0.83 0.08 0.09
Matches are distributed among these distances:
144 3 0.01
145 51 0.13
146 19 0.05
148 58 0.15
149 97 0.25
150 4 0.01
151 3 0.01
152 1 0.00
153 19 0.05
154 8 0.02
155 85 0.22
156 46 0.12
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.42
Consensus pattern (149 bp):
TTTTCTTAAAAATTAAAACTTTTACTTTGAAATAGTTAAAAAAATCAAAACTTTATTTTAAAAAT
TTAAACTTTCCTTTAAAATAACTAAAAAATACAATAATTATTTTTCAAAATCTAAACTTTCTTTT
TAAAAAAAAAAAACACTAT
Found at i:66343894 original size:40 final size:40
Alignment explanation
Indices: 66343839--66343927 Score: 160
Period size: 40 Copynumber: 2.2 Consensus size: 40
66343829 TCTAATCCTC
*
66343839 TCAATTTCCTTCCAAAATTCTGTCAAACCCATATTTAATT
1 TCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATT
*
66343879 TCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATT
1 TCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATT
66343919 TCAATTTCC
1 TCAATTTCC
66343928 CTTCAATTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.31, C:0.26, G:0.01, T:0.42
Consensus pattern (40 bp):
TCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATT
Found at i:66343973 original size:30 final size:31
Alignment explanation
Indices: 66343937--66344002 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
66343927 CCTTCAATTT
66343937 TATTTTTT-AAAATAA-TTTAAATTTTTTTA
1 TATTTTTTAAAAATAATTTTAAATTTTTTTA
66343966 TATTTTTTAAAAATAATTTTAAATTTTTTTA
1 TATTTTTTAAAAATAATTTTAAATTTTTTTA
66343997 TATTTT
1 TATTTT
66344003 CATCAATGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 8 0.23
30 7 0.20
31 20 0.57
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (31 bp):
TATTTTTTAAAAATAATTTTAAATTTTTTTA
Found at i:66349737 original size:124 final size:125
Alignment explanation
Indices: 66349443--66349793 Score: 605
Period size: 124 Copynumber: 2.8 Consensus size: 125
66349433 CCCAAACTTG
* *
66349443 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTTTTCTCAAATAGTATCTTGG
1 CTACTGTAGCAAAATCGCGTTCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGTATCTTGG
*
66349508 TAGAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
* *
66349568 CAACTGTAGCAAAATCGCGTTCACGAGGGCCCGATTTCACAATTTCTTCTCAAATAGTATCTTGG
1 CTACTGTAGCAAAATCGCGTTCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGTATCTTGG
*
66349633 TAGAAGCGATTTTATACTATTTGCTCAGAAACGT-AAAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
* * *
66349692 CTACTGTAGAAAAATCGCGTTCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTTCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGTATCTTGG
*
66349757 TAGAAGTGATTTTATACTATTTACTCAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTACTCAGAAACGTCAA
66349794 CTCGAAATAA
Statistics
Matches: 212, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
124 116 0.55
125 96 0.45
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (125 bp):
CTACTGTAGCAAAATCGCGTTCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGTATCTTGG
TAGAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
Found at i:66362098 original size:20 final size:20
Alignment explanation
Indices: 66362058--66362112 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
66362048 TTTTACTTTT
*
66362058 TTTTAAATAATTTTT-T-GAA
1 TTTTAAAT-ATTTTTATCAAA
*
66362077 TTTTATATATTTTTATCAAA
1 TTTTAAATATTTTTATCAAA
*
66362097 TTTTAAATTTTTTTAT
1 TTTTAAATATTTTTAT
66362113 AATAATAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 6 0.20
19 8 0.27
20 16 0.53
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTAAATATTTTTATCAAA
Found at i:66362140 original size:19 final size:18
Alignment explanation
Indices: 66362094--66362140 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
66362084 TATTTTTATC
66362094 AAAT-TTTAAATTTTTTT
1 AAATATTTAAATTTTTTT
*
66362111 ATAATA-ATAAATTTTTTTT
1 A-AATATTTAAA-TTTTTTT
66362130 AAATATTTAAA
1 AAATATTTAAA
66362141 ATTAAGATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
17 1 0.04
18 11 0.46
19 12 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AAATATTTAAATTTTTTT
Found at i:66365986 original size:3 final size:3
Alignment explanation
Indices: 66365978--66366012 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
66365968 ACTATATGAT
66365978 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
66366013 ATCATTGGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:66379671 original size:140 final size:140
Alignment explanation
Indices: 66379486--66379761 Score: 482
Period size: 140 Copynumber: 2.0 Consensus size: 140
66379476 AAATAGATAA
*
66379486 GTATTCTATTAATTTAATAGATTTAATATTAATTTAATATAAATATTTATCTTGATAAGTATTAT
1 GTATTCTATTAATTTAATAGATTTAATATTAATTTAATATAAATATTTATCTTGATAAGCATTAT
* *
66379551 ATTAATTTAATATTAAAGTGGTTAAGTTTAATTATAGTTGAACTCTTTAAACTCTCCCTACATAA
66 ATTAATTTAATATTAAAGTGATTAAGTTTAATCATAGTTGAACTCTTTAAACTCTCCCTACATAA
66379616 AGAAAGACTT
131 AGAAAGACTT
66379626 GTATTCTATTAATTTAATAGATTTAATATTAAATTTAATAT-AATATTTATCTTGATAAGCATTA
1 GTATTCTATTAATTTAATAGATTTAATATT-AATTTAATATAAATATTTATCTTGATAAGCATTA
* * *
66379690 TATTAATTTAATATTAAAGTGATTAAGTTTAATCATAGTTGAACTTTTTGAACTCTCCCTATATA
65 TATTAATTTAATATTAAAGTGATTAAGTTTAATCATAGTTGAACTCTTTAAACTCTCCCTACATA
66379755 AAGAAAG
130 AAGAAAG
66379762 GTATGGGTAA
Statistics
Matches: 129, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
140 119 0.92
141 10 0.08
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44
Consensus pattern (140 bp):
GTATTCTATTAATTTAATAGATTTAATATTAATTTAATATAAATATTTATCTTGATAAGCATTAT
ATTAATTTAATATTAAAGTGATTAAGTTTAATCATAGTTGAACTCTTTAAACTCTCCCTACATAA
AGAAAGACTT
Done.