Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 214 of 226
Found at i:63883861 original size:72 final size:72
Alignment explanation
Indices: 63883714--63883861 Score: 197
Period size: 72 Copynumber: 2.1 Consensus size: 72
63883704 GAGGAAAGGT
* * **
63883714 ACCATTTAATTGATTTTCTGATACATCGAAGAACTTCAAAGATGATAACTCCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAAGAACTTCAAAGACCATAACTCCCCTATAGACAATG
**
63883779 GAATTTG
66 GAATGGG
* * * **
63883786 ACCATTTAATTGATTTTTTGAAACATCAAAGAATTTCAAAGACCATAACTCCCCTATGGATGATG
1 ACCATTTAATTGATTTTCTGAAACATCAAAGAACTTCAAAGACCATAACTCCCCTATAGACAATG
63883851 GAATGGG
66 GAATGGG
63883858 ACCA
1 ACCA
63883862 GAAATTTTGT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.30
Consensus pattern (72 bp):
ACCATTTAATTGATTTTCTGAAACATCAAAGAACTTCAAAGACCATAACTCCCCTATAGACAATG
GAATGGG
Found at i:63885648 original size:9 final size:8
Alignment explanation
Indices: 63885636--63885723 Score: 68
Period size: 9 Copynumber: 10.1 Consensus size: 8
63885626 ATTTAAAGAA
63885636 TTTACATTT
1 TTTA-ATTT
63885645 TTTAAATTT
1 TTT-AATTT
*
63885654 TTAAATTT
1 TTTAATTT
63885662 TTTAAATTT
1 TTT-AATTT
* *
63885671 CTAAATTT
1 TTTAATTT
63885679 TTATATATTT
1 TT-TA-ATTT
63885689 TTTGAATTT
1 TTT-AATTT
* *
63885698 TTAAATAT
1 TTTAATTT
63885706 TTTAGATTT
1 TTTA-ATTT
63885715 TTTAATTT
1 TTTAATTT
63885723 T
1 T
63885724 AAAATGTGAC
Statistics
Matches: 63, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
8 25 0.40
9 30 0.48
10 8 0.13
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TTTAATTT
Found at i:63885656 original size:8 final size:8
Alignment explanation
Indices: 63885643--63885728 Score: 82
Period size: 8 Copynumber: 10.1 Consensus size: 8
63885633 GAATTTACAT
63885643 TTTTTAAA
1 TTTTTAAA
63885651 TTTTTAAA
1 TTTTTAAA
63885659 TTTTTTAAA
1 -TTTTTAAA
*
63885668 TTTCTAAA
1 TTTTTAAA
63885676 TTTTTATATA
1 TTTTTA-A-A
*
63885686 TTTTTTGAA
1 -TTTTTAAA
63885695 TTTTTAAA
1 TTTTTAAA
*
63885703 TATTTTAGA
1 T-TTTTAAA
*
63885712 TTTTTTAA
1 TTTTTAAA
*
63885720 TTTTAAAA
1 TTTTTAAA
63885728 T
1 T
63885729 GTGACATATA
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
8 40 0.62
9 17 0.27
10 2 0.03
11 5 0.08
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (8 bp):
TTTTTAAA
Found at i:63885661 original size:17 final size:17
Alignment explanation
Indices: 63885636--63885728 Score: 91
Period size: 17 Copynumber: 5.4 Consensus size: 17
63885626 ATTTAAAGAA
*
63885636 TTTACATTTTTTAAATT
1 TTTAAATTTTTTAAATT
63885653 TTTAAATTTTTTAAATT
1 TTTAAATTTTTTAAATT
* *
63885670 TCTAAATTTTTATATATTT
1 TTTAAATTTTT-TA-AATT
*
63885689 TTTGAA-TTTTTAAATAT
1 TTTAAATTTTTTAAAT-T
*
63885706 TTTAGATTTTTT-AATT
1 TTTAAATTTTTTAAATT
*
63885722 TTAAAAT
1 TTTAAAT
63885729 GTGACATATA
Statistics
Matches: 62, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
16 8 0.13
17 36 0.58
18 11 0.18
19 7 0.11
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TTTAAATTTTTTAAATT
Found at i:63895790 original size:18 final size:19
Alignment explanation
Indices: 63895769--63895806 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
63895759 AATGGTGTTA
63895769 ATAAAAAAAATAA-AAATT
1 ATAAAAAAAATAAGAAATT
* *
63895787 ATAAAATAATTAAGAAATT
1 ATAAAAAAAATAAGAAATT
63895806 A
1 A
63895807 AATAAAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (19 bp):
ATAAAAAAAATAAGAAATT
Found at i:63901962 original size:7 final size:6
Alignment explanation
Indices: 63901928--63901963 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
63901918 TATGCTTTTA
63901928 TTTATAT TTTAAT TTTAAT TTTAAT TTTAAAT TTTA
1 TTTA-AT TTTAAT TTTAAT TTTAAT TTT-AAT TTTA
63901964 TATTAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 18 0.64
7 10 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTAAT
Found at i:63901969 original size:18 final size:16
Alignment explanation
Indices: 63901923--63901970 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 16
63901913 TATGTTATGC
63901923 TTTTATTTATATTTTAA
1 TTTTATTTA-ATTTTAA
63901940 TTTTAATTTTAATTTTAAA
1 TTTT-A-TTTAATTTT-AA
63901959 TTTTATATTAAT
1 TTTTAT-TTAAT
63901971 ATAATATAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 5 0.19
18 12 0.44
19 10 0.37
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTATTTAATTTTAA
Found at i:63907557 original size:2 final size:2
Alignment explanation
Indices: 63907550--63907579 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
63907540 CATCTTAGAA
*
63907550 AG AG AG AG AG AG CG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
63907580 TTACAAGACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:63908781 original size:107 final size:107
Alignment explanation
Indices: 63908436--63908844 Score: 610
Period size: 106 Copynumber: 3.8 Consensus size: 107
63908426 GATTTAAGAG
* *
63908436 GATATTTGGCTATTTGGTCGAATGAGAAATCGAAACCCAGCACGTTAGGGCACGTTCTCTCGAA-
1 GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGAAT
* * * * * *
63908500 TTTCCAAACGCAAAATATTGCCTCACTTTGAAA-TTTTGAAAG
66 TTTCCAAACGCAAAATATTACCTTAC-TTCAAAGGTTTAAAAA
* *
63908542 GATATTTGGCTATTTGGTCGAACGAGAAGTCGAAACCCAGCACATTAGGGCACGTTTTCTCGAAT
1 GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGAAT
* * * *
63908607 TTT-CAAAAGCAAAATATTGCCTTACTTCGAAGGTTCAAAAA
66 TTTCCAAACGCAAAATATTACCTTACTTCAAAGGTTTAAAAA
* *
63908648 GATATTTGGCCATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCAAAT
1 GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGAAT
63908713 TTTCCAAACGCAAAATATTACCTTACTTCAAAGGTTTAAAAA
66 TTTCCAAACGCAAAATATTACCTTACTTCAAAGGTTTAAAAA
*
63908755 GATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACG-TAGGGCACGTTTTCTCGAAT
1 GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGAAT
*
63908819 TTTCCAAACACAAAAATATTACCTTA
66 TTTCCAAACGC-AAAATATTACCTTA
63908845 TTTTGAATTT
Statistics
Matches: 275, Mismatches: 24, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
105 4 0.01
106 178 0.65
107 93 0.34
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (107 bp):
GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGAAT
TTTCCAAACGCAAAATATTACCTTACTTCAAAGGTTTAAAAA
Found at i:63909312 original size:12 final size:12
Alignment explanation
Indices: 63909297--63909323 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
63909287 AAAAGTAAAT
63909297 AATATTAAATAA
1 AATATTAAATAA
63909309 AATATTAAATAA
1 AATATTAAATAA
63909321 AAT
1 AAT
63909324 TGATTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AATATTAAATAA
Found at i:63915298 original size:19 final size:19
Alignment explanation
Indices: 63915274--63915311 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
63915264 CTTCGTGTTT
63915274 TGTCAATCTTAATGGCCTA
1 TGTCAATCTTAATGGCCTA
*
63915293 TGTCAATCTTGATGGCCTA
1 TGTCAATCTTAATGGCCTA
63915312 AGTAGAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (19 bp):
TGTCAATCTTAATGGCCTA
Found at i:63919202 original size:72 final size:72
Alignment explanation
Indices: 63919080--63919220 Score: 237
Period size: 72 Copynumber: 2.0 Consensus size: 72
63919070 GAGGAAAAGT
* *
63919080 ACCATTTAATTGATTATCTGTAACATCAAAGAACTTCAAAGATGATAACTCCCCTATAGACAATG
1 ACCACTTAATTGATTATCTGAAACATCAAAGAACTTCAAAGATGATAACTCCCCTATAGACAATG
63919145 GAATTTG
66 GAATTTG
* * *
63919152 ACCACTTAATTGATTTTCTGAAACATCAAAGAACTTCAAAGATGATAACTCCCCTATCGACACTG
1 ACCACTTAATTGATTATCTGAAACATCAAAGAACTTCAAAGATGATAACTCCCCTATAGACAATG
63919217 GAAT
66 GAAT
63919221 GGGACCAAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (72 bp):
ACCACTTAATTGATTATCTGAAACATCAAAGAACTTCAAAGATGATAACTCCCCTATAGACAATG
GAATTTG
Found at i:63920957 original size:26 final size:25
Alignment explanation
Indices: 63920920--63921005 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 25
63920910 AGACTGTATT
63920920 TTTTATAATTTCTGGAAATTTTTAAAG
1 TTTTA-AATTTCT-GAAATTTTTAAAG
*
63920947 TTTTAAATTTCTGAATTTTTTTAAA-
1 TTTTAAATTTCTGAA-ATTTTTAAAG
*
63920972 TTTTAAAATATT-TTAAATTTTTAAAAG
1 TTTT-AAAT-TTCTGAAATTTTT-AAAG
63920999 TTTTAAA
1 TTTTAAA
63921006 ATGTGACATA
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
25 12 0.24
26 28 0.55
27 11 0.22
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (25 bp):
TTTTAAATTTCTGAAATTTTTAAAG
Found at i:63920989 original size:9 final size:8
Alignment explanation
Indices: 63920935--63920996 Score: 61
Period size: 8 Copynumber: 7.4 Consensus size: 8
63920925 TAATTTCTGG
63920935 AAATTTTT
1 AAATTTTT
*
63920943 AAAGTTTT
1 AAATTTTT
*
63920951 AAATTTCTG
1 AAATTT-TT
*
63920960 AATTTTTTT
1 AA-ATTTTT
*
63920969 AAATTTTA
1 AAATTTTT
63920977 AAATATTTT
1 AAAT-TTTT
63920986 AAATTTTT
1 AAATTTTT
63920994 AAA
1 AAA
63920997 AGTTTTAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
8 27 0.63
9 13 0.30
10 3 0.07
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (8 bp):
AAATTTTT
Found at i:63921002 original size:17 final size:17
Alignment explanation
Indices: 63920935--63921005 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
63920925 TAATTTCTGG
63920935 AAATTTTT-AAAGTTTT
1 AAATTTTTAAAAGTTTT
* ***
63920951 AAATTTCTGAATTTTTTT
1 AAATTT-TTAAAAGTTTT
*
63920969 AAA-TTTTAAAATATTTT
1 AAATTTTTAAAA-GTTTT
63920986 AAATTTTTAAAAGTTTT
1 AAATTTTTAAAAGTTTT
63921003 AAA
1 AAA
63921006 ATGTGACATA
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
16 9 0.21
17 17 0.40
18 16 0.38
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (17 bp):
AAATTTTTAAAAGTTTT
Found at i:63921007 original size:18 final size:18
Alignment explanation
Indices: 63920935--63921007 Score: 64
Period size: 18 Copynumber: 4.2 Consensus size: 18
63920925 TAATTTCTGG
63920935 AAATTTTT-AAAG-TTTT
1 AAATTTTTAAAAGTTTTT
* * **
63920951 AAATTTCTGAATTTTTTT
1 AAATTTTTAAAAGTTTTT
63920969 AAA-TTTTAAAA-TATTTT
1 AAATTTTTAAAAGT-TTTT
*
63920986 AAATTTTTAAAAGTTTTA
1 AAATTTTTAAAAGTTTTT
63921004 AAAT
1 AAAT
63921008 GTGACATATA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
16 8 0.18
17 14 0.31
18 22 0.49
19 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (18 bp):
AAATTTTTAAAAGTTTTT
Found at i:63925510 original size:19 final size:20
Alignment explanation
Indices: 63925486--63925523 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
63925476 AGCTTTGCTG
63925486 AACAAA-TTACAATTGAACT
1 AACAAAGTTACAATTGAACT
*
63925505 AACAAAGTTACATTTGAAC
1 AACAAAGTTACAATTGAAC
63925524 AAAACAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.50, C:0.16, G:0.08, T:0.26
Consensus pattern (20 bp):
AACAAAGTTACAATTGAACT
Found at i:63929957 original size:19 final size:20
Alignment explanation
Indices: 63929933--63929970 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
63929923 AGCTTTGCTG
63929933 AACAAA-TTACAATTGAACT
1 AACAAAGTTACAATTGAACT
*
63929952 AACAAAGTTACATTTGAAC
1 AACAAAGTTACAATTGAAC
63929971 AAAATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.50, C:0.16, G:0.08, T:0.26
Consensus pattern (20 bp):
AACAAAGTTACAATTGAACT
Found at i:63933739 original size:18 final size:18
Alignment explanation
Indices: 63933713--63933748 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
63933703 CATACATCCA
*
63933713 TAAATAATTACAAATTTT
1 TAAACAATTACAAATTTT
*
63933731 TAAACAATTACTAATTTT
1 TAAACAATTACAAATTTT
63933749 CTTTGCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAACAATTACAAATTTT
Found at i:63938203 original size:14 final size:14
Alignment explanation
Indices: 63938184--63938210 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
63938174 GAAAAGTTCA
63938184 TTTAATTTTAATTT
1 TTTAATTTTAATTT
63938198 TTTAATTTTAATT
1 TTTAATTTTAATT
63938211 CCCTTATATT
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTAATTTTAATTT
Found at i:63943033 original size:23 final size:20
Alignment explanation
Indices: 63942992--63943042 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 20
63942982 TTTTAGATTT
63942992 TTTTTAAATTTTCTTTATATA
1 TTTTTAAATTTTCTTTATA-A
63943013 TTCTTTAGAATTTT-TTCTATAA
1 TT-TTTA-AATTTTCTT-TATAA
63943035 TTTTTAAA
1 TTTTTAAA
63943043 AAATATGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 2 0.07
21 6 0.22
22 9 0.33
23 10 0.37
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTTAAATTTTCTTTATAA
Found at i:63943110 original size:20 final size:20
Alignment explanation
Indices: 63943070--63943121 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
63943060 TTGCTAGAAA
*
63943070 TATTTTTAA-TTTTAAAGAT
1 TATTTTGAATTTTTAAAGAT
63943089 TATTTTGAATTTTTGAAA-AT
1 TATTTTGAATTTTT-AAAGAT
*
63943109 TAATTTG-ATTTTT
1 TATTTTGAATTTTT
63943122 TTTTGTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 14 0.48
20 12 0.41
21 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.60
Consensus pattern (20 bp):
TATTTTGAATTTTTAAAGAT
Found at i:63943756 original size:29 final size:29
Alignment explanation
Indices: 63943702--63943784 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 29
63943692 TTTCAAAATT
* * *
63943702 ATACATGAACTTTGATTTAATGTACAATTGC
1 ATACATGAACTTTAATTT--GGTACAATTAC
*
63943733 ATACATGAACTTTAATTTGGTACAATTAT
1 ATACATGAACTTTAATTTGGTACAATTAC
*
63943762 ATACATGAAGCTCTAATTGTGGT
1 ATACATGAA-CTTTAATT-TGGT
63943785 TTAAATGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
29 17 0.38
30 7 0.16
31 21 0.47
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (29 bp):
ATACATGAACTTTAATTTGGTACAATTAC
Found at i:63944007 original size:29 final size:30
Alignment explanation
Indices: 63943954--63944012 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
63943944 GAATTGGATC
*
63943954 AAATCAAAATTTCTTGTATAAAATTGCACA
1 AAATCAAAATTTCATGTATAAAATTGCACA
63943984 AAATCAAAA-TTCATGTA-AACAATTGCACA
1 AAATCAAAATTTCATGTATAA-AATTGCACA
63944013 TTAAACAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 2 0.07
29 16 0.59
30 9 0.33
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTGCACA
Found at i:63947498 original size:16 final size:16
Alignment explanation
Indices: 63947477--63947509 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
63947467 CAAGACAGTT
63947477 AAATAAAACATGGTAA
1 AAATAAAACATGGTAA
63947493 AAATAAAACATGGTAA
1 AAATAAAACATGGTAA
63947509 A
1 A
63947510 GTGTTCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAATAAAACATGGTAA
Found at i:63948594 original size:28 final size:27
Alignment explanation
Indices: 63948556--63948616 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
63948546 TATAGGTAAT
*
63948556 AAAA-AAATAAACAG-ATTAAAAATTATA
1 AAAATAAATAAA-AGTATTAAAAAAT-TA
*
63948583 AAAATAAATAAAAGTTTTAAAAAATTA
1 AAAATAAATAAAAGTATTAAAAAATTA
63948610 AAAATAA
1 AAAATAA
63948617 TTTAATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 15 0.50
28 15 0.50
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (27 bp):
AAAATAAATAAAAGTATTAAAAAATTA
Found at i:63959634 original size:21 final size:21
Alignment explanation
Indices: 63959610--63959649 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
63959600 TAACTCTAGC
63959610 ATTTATAAAA-TTTATAATTAA
1 ATTT-TAAAACTTTATAATTAA
*
63959631 ATTTTAAAACTTTTTAATT
1 ATTTTAAAACTTTATAATT
63959650 CTTAAATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTTTAAAACTTTATAATTAA
Found at i:63961218 original size:19 final size:18
Alignment explanation
Indices: 63961180--63961229 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
63961170 TAAAACCCCT
63961180 TTTTTATAAATAAATATA
1 TTTTTATAAATAAATATA
*
63961198 TTTTTATCAAT-AAT-TA
1 TTTTTATAAATAAATATA
63961214 TTATTTA-AAA-AAATAT
1 TT-TTTATAAATAAATAT
63961230 TAGTTCAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
16 9 0.33
17 8 0.30
18 10 0.37
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTTTATAAATAAATATA
Found at i:63968525 original size:17 final size:17
Alignment explanation
Indices: 63968500--63968533 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
63968490 TTGAATGAGA
* *
63968500 TTATCTTTTTGTTAAAT
1 TTATATTTTGGTTAAAT
63968517 TTATATTTTGGTTAAAT
1 TTATATTTTGGTTAAAT
63968534 CAAATCAAAT
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:0.26, C:0.03, G:0.09, T:0.62
Consensus pattern (17 bp):
TTATATTTTGGTTAAAT
Found at i:63974852 original size:17 final size:18
Alignment explanation
Indices: 63974827--63974861 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
63974817 GACTTTTTAT
*
63974827 AATTTATAA-AATAAAAA
1 AATTAATAATAATAAAAA
63974844 AATTAATAATAATAAAAA
1 AATTAATAATAATAAAAA
63974862 TGTACTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AATTAATAATAATAAAAA
Found at i:63979574 original size:138 final size:135
Alignment explanation
Indices: 63979317--63979693 Score: 353
Period size: 138 Copynumber: 2.7 Consensus size: 135
63979307 TCGTTTTCTT
* * * * **
63979317 CAAGAAAAAGAGCCGCCTGTTGCTGGACATGAAGAACCGTCTGAAATGCTAAATAAACGATCTCT
1 CAAGGAAAAGAGCC-CATGTTGCTGGACATGAAGAACCGTCGGAAATGCTAGATAAAC-AGGTC-
* * * * ** * * *
63979382 ACTCCAAGAAAAAGAGC-CACCTGTCGCTGGACACAAAGAACCGTCAGAAATGCTAGATCAACTA
63 AATCCAAGAAAATGAGCTC-CATGTTGCTGGACATGAAGAACCATCAGAAATGCTAGATAAACGA
** *
63979446 CCTCTCCTG
127 CCTCGACTC
* *
63979455 CAAGGAAAAGAGCCACATGTTCCTGGAGATGAAGAACCGTCGGAAATGCTAGATAAACAAGGTCG
1 CAAGGAAAAGAGCC-CATGTTGCTGGACATGAAGAACCGTCGGAAATGCTAGATAAAC-AGGTC-
* * * * *
63979520 AAACAAAGAAAATGAGCTCCATGTTGCCGGACATGAAGAACCATCGGAAGTGCTAGATAAACGAC
63 AATCCAAGAAAATGAGCTCCATGTTGCTGGACATGAAGAACCATCAGAAATGCTAGATAAACGAC
*
63979585 GTCGACTC
128 CTCGACTC
* * * * *
63979593 CAA-GAAAATGAGCTCCATGTTGATGGACATGAAGAGCCCTCGGAAATACTAGATCAACAGAGTC
1 CAAGGAAAA-GAGC-CCATGTTGCTGGACATGAAGAACCGTCGGAAATGCTAGATAAACAG-GTC
*
63979657 AACTCCAAGAAAATGAGCTCCATGTTGCTGGAAATGA
63 AA-TCCAAGAAAATGAGCTCCATGTTGCTGGACATGA
63979694 GCTAGATAAA
Statistics
Matches: 194, Mismatches: 40, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
137 9 0.05
138 183 0.94
139 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (135 bp):
CAAGGAAAAGAGCCCATGTTGCTGGACATGAAGAACCGTCGGAAATGCTAGATAAACAGGTCAAT
CCAAGAAAATGAGCTCCATGTTGCTGGACATGAAGAACCATCAGAAATGCTAGATAAACGACCTC
GACTC
Found at i:63979675 original size:69 final size:69
Alignment explanation
Indices: 63979317--63979693 Score: 300
Period size: 69 Copynumber: 5.5 Consensus size: 69
63979307 TCGTTTTCTT
* * * * * *
63979317 CAAGAAAAAGAGC-CGCCTGTTGCTGGACATGAAGAACCGTCTGAAATGCTAAATAAACGATC-T
1 CAAGAAAATGAGCTC-CATGTTGCTGGACATGAAGAACCATCGGAAATACTAGATAAACGA-CGT
*
63979380 CTACTC
64 CAACTC
* * * ** * * * * * *
63979386 CAAGAAAAAGAGC-CACCTGTCGCTGGACACAAAGAACCGTCAGAAATGCTAGATCAACTACCTC
1 CAAGAAAATGAGCTC-CATGTTGCTGGACATGAAGAACCATCGGAAATACTAGATAAACGACGTC
** *
63979450 TCCTG
65 AACTC
* * * * * *
63979455 CAAGGAAAA-GAGC-CACATGTTCCTGGAGATGAAGAACCGTCGGAAATGCTAGATAAACAAGGT
1 CAA-GAAAATGAGCTC-CATGTTGCTGGACATGAAGAACCATCGGAAATACTAGATAAACGACGT
*
63979518 CGAA-AC
64 C-AACTC
* * * * *
63979524 AAAGAAAATGAGCTCCATGTTGCCGGACATGAAGAACCATCGGAAGTGCTAGATAAACGACGTCG
1 CAAGAAAATGAGCTCCATGTTGCTGGACATGAAGAACCATCGGAAATACTAGATAAACGACGTCA
63979589 ACTC
66 ACTC
* * * *
63979593 CAAGAAAATGAGCTCCATGTTGATGGACATGAAGAGCCCTCGGAAATACTAGATCAACAGA-GTC
1 CAAGAAAATGAGCTCCATGTTGCTGGACATGAAGAACCATCGGAAATACTAGATAAAC-GACGTC
63979657 AACTC
65 AACTC
*
63979662 CAAGAAAATGAGCTCCATGTTGCTGGAAATGA
1 CAAGAAAATGAGCTCCATGTTGCTGGACATGA
63979694 GCTAGATAAA
Statistics
Matches: 255, Mismatches: 46, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
68 7 0.03
69 240 0.94
70 8 0.03
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (69 bp):
CAAGAAAATGAGCTCCATGTTGCTGGACATGAAGAACCATCGGAAATACTAGATAAACGACGTCA
ACTC
Found at i:63979759 original size:123 final size:123
Alignment explanation
Indices: 63979571--63979816 Score: 323
Period size: 123 Copynumber: 2.0 Consensus size: 123
63979561 CATCGGAAGT
* ** * * *
63979571 GCTAGATAAACGACGTCGACTCCAAGAAAATGAGCTCCATGTTGATGGACATGAAGAGCCCTCGG
1 GCTAGATAAACGAAGTCGACTCCAAGAAAACAAACTCCATGTTGACGGACATGAAGAGCCATCGG
* * *
63979636 AAATACTAGATCAACAGA-GTCAACTCCAAGAAAATGAGCTCCATGTTGCTGGAAATGA
66 AAATACTAGATAAAC-GACGTCAACTCCAAGAAAATGAGCTCCAAGTTGATGGAAATGA
* ** *
63979694 GCTAGATAAACGAAGTCGACTCCAAGAAAACAAACTCCGTGTTTCCGGGCATGAAGAGCCATCGG
1 GCTAGATAAACGAAGTCGACTCCAAGAAAACAAACTCCATGTTGACGGACATGAAGAGCCATCGG
* * * *
63979759 AAATGCTAGATAAACGACGTCGACTCCTAGAAAATGAGCTCCAAGTTGATGGACATGA
66 AAATACTAGATAAACGACGTCAACTCCAAGAAAATGAGCTCCAAGTTGATGGAAATGA
63979817 ACAGCCCGTA
Statistics
Matches: 105, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
122 2 0.02
123 103 0.98
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (123 bp):
GCTAGATAAACGAAGTCGACTCCAAGAAAACAAACTCCATGTTGACGGACATGAAGAGCCATCGG
AAATACTAGATAAACGACGTCAACTCCAAGAAAATGAGCTCCAAGTTGATGGAAATGA
Found at i:63979816 original size:69 final size:66
Alignment explanation
Indices: 63979743--63979984 Score: 212
Period size: 69 Copynumber: 3.7 Consensus size: 66
63979733 TGTTTCCGGG
* * *
63979743 CATGAAGAGCCATCGGAAATGCTAGATAAACGACGTCGACTCCTAGAAAATGAGCTCCAAGTTGA
1 CATGAAGAGCCCTCGGAAATGCTAGATAAAAGACATCGACTCC-AGAAAA-GA-CTCCAAGTTGA
63979808 TGGA
63 TGGA
* * * * * * *
63979812 CATGAACAGCCCGT-AGAAATGCTAGATAAATGGCATCGACTCC----AAGA--ACATGTTAATG
1 CATGAAGAGCCC-TCGGAAATGCTAGATAAAAGACATCGACTCCAGAAAAGACTCCAAGTTGATG
63979870 GA
65 GA
* * *
63979872 CATGAAGAGCCCTCGAAAATGCTAAATAAAAGAGGA-CGACTCCAAGATAAAGAACTCCAAGTTG
1 CATGAAGAGCCCTCGGAAATGCTAGATAAAAGA-CATCGACTCC-AGA-AAAG-ACTCCAAGTTG
63979936 ATGGA
62 ATGGA
** *
63979941 CACCAAGAGCCCTCAGAAATGCTAGATAAAAGACATCGACTCCA
1 CATGAAGAGCCCTCGGAAATGCTAGATAAAAGACATCGACTCCA
63979985 AGATGGACAT
Statistics
Matches: 135, Mismatches: 25, Indels: 27
0.72 0.13 0.14
Matches are distributed among these distances:
59 1 0.01
60 42 0.31
61 1 0.01
63 2 0.01
64 2 0.01
66 3 0.02
67 1 0.01
68 2 0.01
69 80 0.59
70 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.17
Consensus pattern (66 bp):
CATGAAGAGCCCTCGGAAATGCTAGATAAAAGACATCGACTCCAGAAAAGACTCCAAGTTGATGG
A
Found at i:63979901 original size:60 final size:60
Alignment explanation
Indices: 63979803--63981968 Score: 873
Period size: 60 Copynumber: 34.0 Consensus size: 60
63979793 TGAGCTCCAA
* * * *
63979803 GTTGATGGACATGAACAGCCCGTAG-AAATGCTAGATAAATGGCATCGACTCCAAGAACAT
1 GTTGATGGACATGAAGAGCCC-TCGAAAATGCTAGATAAAAGGCGTCGACTCCAAGAACAT
* * *
63979863 GTTAATGGACATGAAGAGCCCTCGAAAATGCTAAATAAAAGAG-GACGACTCCAAGATAAAGAAC
1 GTTGATGGACATGAAGAGCCCTCGAAAATGCTAGATAAAAG-GCGTCGACTCC------AAGAA-
*
63979927 TCCAA
58 --CAT
** * *
63979932 GTTGATGGACACCAAGAGCCCTC-AGAAATGCTAGATAAAAGACATCGACTCC----A-A-
1 GTTGATGGACATGAAGAGCCCTCGA-AAATGCTAGATAAAAGGCGTCGACTCCAAGAACAT
* * * **
63979986 ---GATGGACATGAAGAACCCTTAG-AAATGCTAGATAAACGGCACCGACTCCAAGAACAT
1 GTTGATGGACATGAAGAGCCC-TCGAAAATGCTAGATAAAAGGCGTCGACTCCAAGAACAT
* * * * *
63980043 ATCGATGGACACGAAGAGCCC-CCAGAAATGCTAGATAAAAGACGTCGACTCCTAGAAAATGAGC
1 GTTGATGGACATGAAGAGCCCTCGA-AAATGCTAGATAAAAGGCGTCGACTCC-----AA-GA--
* *
63980107 TCCAA
57 -ACAT
*
63980112 GTTGATGGACATGAAGAGCCCTCAAAAATGCTAGATAAACA-GCGTCGACTCCAAGAACAT
1 GTTGATGGACATGAAGAGCCCTCGAAAATGCTAGATAAA-AGGCGTCGACTCCAAGAACAT
** *
63980172 GTCAATGGACACGAAGAGCCCTC-AGAAATGCTAGATAAAAGGCGTCGACTCCAAGAGAAAGAAC
1 GTTGATGGACATGAAGAGCCCTCGA-AAATGCTAGATAAAAGGCGTCGACTCC------AAGAA-
*
63980236 TCCAA
58 --CAT
* * *
63980241 GTTGATGGACATGAAGAGCCCTC-AGAAATGCTAGATAAACGACGTCGACTCAAAGAACAT
1 GTTGATGGACATGAAGAGCCCTCGA-AAATGCTAGATAAAAGGCGTCGACTCCAAGAACAT
* * * * *
63980301 ATCGATGGACAGGAAGAGCCCTCGAAAATGCTAGATAAAAGACGTCAACTCCAACAGAAAGAACT
1 GTTGATGGACATGAAGAGCCCTCGAAAATGCTAGATAAAAGGCGTCGACT-C--C---AAGAA--
*
63980366 CCAA
58 -CAT
* *
63980370 GTTGATGGACATGAAGAGCCCTC-AGAAATGCTAGATAAACGGCGTCGACTCAAAGAACAT
1 GTTGATGGACATGAAGAGCCCTCGA-AAATGCTAGATAAAAGGCGTCGACTCCAAGAACAT
* * ** * * * * *
63980430 ATAGATGGACACAAAGAACCTTGGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACT
1 GTTGATGGACATGAAGAGCCCTCGAAAATGCTAGATAAAAGGCGTCGACTCC------AAGAA--
*
63980495 CCAA
58 -CAT
* *
63980499 GTTGATGGACATGAAGAGCCCTC-AGAAATGCTAGATAAACGGCGTCGACTCAAAGAACAT
1 GTTGATGGACATGAAGAGCCCTCGA-AAATGCTAGATAAAAGGCGTCGACTCCAAGAACAT
* * * * * * *
63980559 ATCGATGGATACGAAGAGCCCTCGGAAATGCTAGATAAACGACGTCGACTCCAAGAAAATAAGCT
1 GTTGATGGACATGAAGAGCCCTCGAAAATGCTAGATAAAAGGCGTCGACTCCAAG-----AA---
63980624 CCAT
58 -CAT
* * * * *
63980628 GTTGATGGACATGAAGAGCCCTCGGAAATACTAGATCAACA-GCGTCAACTCCAAGAAAAT
1 GTTGATGGACATGAAGAGCCCTCGAAAATGCTAGAT-AAAAGGCGTCGACTCCAAGAACAT
** * * * * ** ** *** ***
63980688 GAGCTCCATGTTG-C-TGGAAATGAG--CTAGATGAACG-AAG-T-CGACTCCAAGAAAACAA-A
1 --G-TTGATG--GACAT-G-AA-GAGCCCTCGA-AAATGCTAGATAAAAGGCGTCGACTCCAAGA
*
63980745 CTCCAT
57 --ACAT
*** * * * * *
63980751 GTTTCCGGACATGAAGAGCCATCGGAAATGCTAGATAAACGACGTCGACTCCTAGAAAATAAGCT
1 GTTGATGGACATGAAGAGCCCTCGAAAATGCTAGATAAAAGGCGTCGACTCC-----AAGAA---
*
63980816 CCAA
58 -CAT
* * * * * *
63980820 GTTGATCGACATGAACAGCCCT-TAGAAATGCTAGATAAACGGCATCGACTCCAAGATCAT
1 GTTGATGGACATGAAGAGCCCTCGA-AAATGCTAGATAAAAGGCGTCGACTCCAAGAACAT
** *
63980880 GTTGATGGACACAAAGAGCCCTC-AGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAAC
1 GTTGATGGACATGAAGAGCCCTCGA-AAATGCTAGATAAAAGGCGTCGACTCC------AAGAA-
*
63980944 TCCAA
58 --CAT
* *
63980949 GTTGATGGACATGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCTAGAAAATGAGCT
1 GTTGATGGACATGAAGAGCCCTCGAAAATGCTAGATAAAAGGCGTCGACTCC-----AA-GA---
* *
63981014 CCAA
57 ACAT
* *
63981018 GTTGATGGACATGAAGAGCCCTCAAAAATGCTAGATAAACA-GCGTCGACTCAAAGAACAT
1 GTTGATGGACATGAAGAGCCCTCGAAAATGCTAGATAAA-AGGCGTCGACTCCAAGAACAT
* * ** * *
63981078 ATCGATGGACACAAAGAGCCCTCGAAAATGCTAGATAAAAGACGTCTACTCCAAGAGAAAGAGCT
1 GTTGATGGACATGAAGAGCCCTCGAAAATGCTAGATAAAAGGCGTCGACTCC-A-AG--A-A---
*
63981143 CCAA
58 -CAT
* * * * *
63981147 GTTGATGGACATAAAGAGCCCT-TAGAAATGCTAGATAAACA-ACGTCAACTCAAAGAACAT
1 GTTGATGGACATGAAGAGCCCTCGA-AAATGCTAGATAAA-AGGCGTCGACTCCAAGAACAT
* * ** * * *
63981207 GTCGATAGACACAAACAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAAGT
1 GTTGATGGACATGAAGAGCCCTCGAAAATGCTAGATAAAAGGCGTCGACTCC------AAGAA--
*
63981272 CCAA
58 -CAT
* *
63981276 GTTGATGGACATGAAGAGCCCTC-AGAAATGCTAGATAAACGGCGTCGACTCAAAGAACAT
1 GTTGATGGACATGAAGAGCCCTCGA-AAATGCTAGATAAAAGGCGTCGACTCCAAGAACAT
* * * * *
63981336 ATCGATGGACATCAAGAGCCCTC-AGAAATGCTAGATAAACGACGTCGACTCCAAGAGAAAGAAC
1 GTTGATGGACATGAAGAGCCCTCGA-AAATGCTAGATAAAAGGCGTCGACTCC------AAGAA-
*
63981400 TCCAA
58 --CAT
* * * * *
63981405 GTTGATGGACATGAAGAGCCCTC-AGAAATGCTAGATAAACGACATCAACTCAAAGAACAT
1 GTTGATGGACATGAAGAGCCCTCGA-AAATGCTAGATAAAAGGCGTCGACTCCAAGAACAT
* * * * * * * *
63981465 ATCGATGGACACGAAGAGCCTTGGCAAATGCTAGATAAAAGACGTCAACTCCAAGAGAAAAAACT
1 GTTGATGGACATGAAGAGCCCTCGAAAATGCTAGATAAAAGGCGTCGACTCC-A-AG----AA--
*
63981530 CCAA
58 -CAT
* * * *
63981534 GTTGATGGACATGAAGAACCCTC-AGAAATGCTAGATAAACGACGTCGACTCAAAGAACAT
1 GTTGATGGACATGAAGAGCCCTCGA-AAATGCTAGATAAAAGGCGTCGACTCCAAGAACAT
* * * * * * * **
63981594 ATCGATGGACACGAAGGGCTCTCAAAAAAGCTAGATAAAATACGTCGACTCCAAGAGAAAGAACT
1 GTTGATGGACATGAAGAGCCCTCGAAAATGCTAGATAAAAGGCGTCGACTCC------AAGAA--
*
63981659 CCAA
58 -CAT
* *
63981663 GTTGATGGACATGAAGAGCCCTC-AGAAATGCTAGATAAACGGCGTCGACTCAAAGAACAT
1 GTTGATGGACATGAAGAGCCCTCGA-AAATGCTAGATAAAAGGCGTCGACTCCAAGAACAT
* * * * * * * *
63981723 ATTGATGGACACGAAGAGCCCTTGGAAATGCTAGATAAAAGGCGTCAACTCGAGGAAAAT
1 GTTGATGGACATGAAGAGCCCTCGAAAATGCTAGATAAAAGGCGTCGACTCCAAGAACAT
* * * *
63981783 GTTGATGGACA-CAGAGAGCCCTCAAAAATGCTAGATAAAAGACATCGACTCCAAGAAAATGAGC
1 GTTGATGGACATGA-AGAGCCCTCGAAAATGCTAGATAAAAGGCGTCGACTCCAAG---A--A--
63981847 TCCAT
58 --CAT
* * * *
63981852 GTTGATGGACATGAAGAGCCCTCGGAAATGCTAGATAAACGACGTCGACTCCAAGAAAAT
1 GTTGATGGACATGAAGAGCCCTCGAAAATGCTAGATAAAAGGCGTCGACTCCAAGAACAT
* * * * * *
63981912 GTTCATGGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACTTAGACTCCAAGAA
1 GTTGATGGACATGAAGAGCCCTCGAAAATGCTAGATAAAAGGCGTCGACTCCAAGAA
63981969 ATTGAGCTTC
Statistics
Matches: 1605, Mismatches: 307, Indels: 388
0.70 0.13 0.17
Matches are distributed among these distances:
51 39 0.02
52 1 0.00
55 2 0.00
56 1 0.00
57 3 0.00
58 6 0.00
59 14 0.01
60 685 0.43
61 13 0.01
62 10 0.01
63 45 0.03
64 19 0.01
65 12 0.01
66 49 0.03
67 5 0.00
68 10 0.01
69 683 0.43
70 8 0.00
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.17
Consensus pattern (60 bp):
GTTGATGGACATGAAGAGCCCTCGAAAATGCTAGATAAAAGGCGTCGACTCCAAGAACAT
Found at i:63979978 original size:129 final size:129
Alignment explanation
Indices: 63979743--63979987 Score: 341
Period size: 129 Copynumber: 1.9 Consensus size: 129
63979733 TGTTTCCGGG
* * * * * *
63979743 CATGAAGAGCCATCGGAAATGCTAGATAAACGACGTCGACTCCTAGAAAATGAGCTCCAAGTTGA
1 CATGAAGAGCCATCGAAAATGCTAAATAAAAGACGACGACTCCAAGAAAATGAACTCCAAGTTGA
** * *
63979808 TGGACATGAACAGCCCGTAGAAATGCTAGATAAATGGCATCGACTCCAAGAACATGTTAATGGA
66 TGGACACCAACAGCCCGTAGAAATGCTAGATAAAAGACATCGACTCCAAGAACATGTTAATGGA
* *
63979872 CATGAAGAGCCCTCGAAAATGCTAAATAAAAGAGGACGACTCCAAGATAAA-GAACTCCAAGTTG
1 CATGAAGAGCCATCGAAAATGCTAAATAAAAGACGACGACTCCAAGA-AAATGAACTCCAAGTTG
*
63979936 ATGGACACCAAGAGCCC-TCAGAAATGCTAGATAAAAGACATCGACTCCAAGA
65 ATGGACACCAACAGCCCGT-AGAAATGCTAGATAAAAGACATCGACTCCAAGA
63979988 TGGACATGAA
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
128 1 0.01
129 97 0.96
130 3 0.03
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.17
Consensus pattern (129 bp):
CATGAAGAGCCATCGAAAATGCTAAATAAAAGACGACGACTCCAAGAAAATGAACTCCAAGTTGA
TGGACACCAACAGCCCGTAGAAATGCTAGATAAAAGACATCGACTCCAAGAACATGTTAATGGA
Found at i:63979993 original size:51 final size:53
Alignment explanation
Indices: 63979935--63980094 Score: 162
Period size: 51 Copynumber: 2.9 Consensus size: 53
63979925 ACTCCAAGTT
*
63979935 GATGGACACCAAGAGCCCTCAGAAATGCTAGATAAAAGACATCGACTCCA-A-
1 GATGGACACGAAGAGCCCTCAGAAATGCTAGATAAAAGACATCGACTCCATAC
* * * * * *
63979986 GATGGACATGAAGAACCCTTAGAAATGCTAGATAAACGGCACCGACTCCAAGAACATATC
1 GATGGACACGAAGAGCCCTCAGAAATGCTAGATAAAAGACATCGACT-C-----CATA-C
* *
63980046 GATGGACACGAAGAGCCCCCAGAAATGCTAGATAAAAGACGTCGACTCC
1 GATGGACACGAAGAGCCCTCAGAAATGCTAGATAAAAGACATCGACTCC
63980095 TAGAAAATGA
Statistics
Matches: 85, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
51 40 0.47
52 1 0.01
54 1 0.01
57 2 0.02
58 1 0.01
59 1 0.01
60 39 0.46
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.14
Consensus pattern (53 bp):
GATGGACACGAAGAGCCCTCAGAAATGCTAGATAAAAGACATCGACTCCATAC
Found at i:63980158 original size:69 final size:70
Alignment explanation
Indices: 63980046--63980710 Score: 593
Period size: 69 Copynumber: 10.2 Consensus size: 70
63980036 AGAACATATC
* * *
63980046 GATGGACACGAAGAGCCCCCAGAAATGCTAGATAAA-AGACGTCGACTCCTAGAAAATGAGCTCC
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAGACGTCGACTCCAAGAAAATGAGCTCC
63980110 AAGTT
66 AAGTT
* *
63980115 GATGGACATGAAGAGCCCTCAAAAATGCTAGATAAACAG-CGTCGACTCCAAGAACAT--G-T-C
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAGACGTCGACTCCAAGAAAATGAGCTCC
63980175 -A---
66 AAGTT
* * *
63980176 -ATGGACACGAAGAGCCCTCAGAAATGCTAGATAAA-AGGCGTCGACTCCAAGAGAAA-GAACTC
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAGACGTCGACTCCAAGA-AAATGAGCTC
63980238 CAAGTT
65 CAAGTT
* *
63980244 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAAC-GACGTCGACTCAAAGAACAT-A--T-C
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAGACGTCGACTCCAAGAAAATGAGCTCC
63980304 -----
66 AAGTT
* * * *
63980304 GATGGACAGGAAGAGCCCTC-GAAAATGCTAGATAAA-AGACGTCAACTCCAACAGAAA-GAACT
1 GATGGACATGAAGAGCCCTCAG-AAATGCTAGATAAACAGACGTCGACTCCAAGA-AAATGAGCT
63980366 CCAAGTT
64 CCAAGTT
* * *
63980373 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAAC-GGCGTCGACTCAAAGAACAT-A--T--
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAGACGTCGACTCCAAGAAAATGAGCTCC
63980432 -A---
66 AAGTT
** * * ** *
63980433 GATGGACACAAAGAACCTTGGGAAATGCTAGATAAA-AGACGTCGACTCCAAGAGAAA-GAACTC
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAGACGTCGACTCCAAGA-AAATGAGCTC
63980496 CAAGTT
65 CAAGTT
* * *
63980502 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAAC-GGCGTCGACTCAAAGAACAT-A--T-C
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAGACGTCGACTCCAAGAAAATGAGCTCC
63980562 -----
66 AAGTT
* * * *
63980562 GATGGATACGAAGAGCCCTCGGAAATGCTAGATAAAC-GACGTCGACTCCAAGAAAATAAGCTCC
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAGACGTCGACTCCAAGAAAATGAGCTCC
*
63980626 ATGTT
66 AAGTT
* * * *
63980631 GATGGACATGAAGAGCCCTCGGAAATACTAGATCAACAG-CGTCAACTCCAAGAAAATGAGCTCC
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAGACGTCGACTCCAAGAAAATGAGCTCC
*
63980695 ATGTT
66 AAGTT
* *
63980700 GCTGGAAATGA
1 GATGGACATGA
63980711 GCTAGATGAA
Statistics
Matches: 488, Mismatches: 56, Indels: 104
0.75 0.09 0.16
Matches are distributed among these distances:
59 3 0.01
60 188 0.39
61 9 0.02
63 5 0.01
64 4 0.01
65 4 0.01
66 5 0.01
67 1 0.00
68 9 0.02
69 256 0.52
70 4 0.01
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.17
Consensus pattern (70 bp):
GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAGACGTCGACTCCAAGAAAATGAGCTCC
AAGTT
Found at i:63980218 original size:129 final size:129
Alignment explanation
Indices: 63979986--63981907 Score: 2178
Period size: 129 Copynumber: 14.9 Consensus size: 129
63979976 TCGACTCCAA
* * * ** *
63979986 GATGGACATGAAGAACCCTTAGAAATGCTAGATAAACGGCACCGACTCCAAGAACATATCGATGG
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAGCGTCGACTCAAAGAACATATCGATGG
* * * *
63980051 ACACGAAGAGCCCCCAGAAATGCTAGATAAAAGACGTCGACTCCTAGA-AAATGAGCTCCAAGTT
66 ACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAA-GAACTCCAAGTT
* * * *
63980115 GATGGACATGAAGAGCCCTCAAAAATGCTAGATAAACAGCGTCGACTCCAAGAACATGTCAATGG
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAGCGTCGACTCAAAGAACATATCGATGG
* *
63980180 ACACGAAGAGCCCTCAGAAATGCTAGATAAAAGGCGTCGACTCCAAGAGAAAGAACTCCAAGTT
66 ACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGTT
63980244 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAAC-GACGTCGACTCAAAGAACATATCGATG
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAG-CGTCGACTCAAAGAACATATCGATG
* * * *
63980308 GACAGGAAGAGCCCTCGAAAATGCTAGATAAAAGACGTCAACTCCAACAGAAAGAACTCCAAGTT
65 GACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGTT
* *
63980373 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATAGATGG
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAGCGTCGACTCAAAGAACATATCGATGG
* * * *
63980438 ACACAAAGAACCTTGGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGTT
66 ACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGTT
*
63980502 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGG
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAGCGTCGACTCAAAGAACATATCGATGG
* * * *
63980567 ATACGAAGAGCCCTCGGAAATGCTAGATAAACGACGTCGACTCCAAGA-AAATAAGCTCCATGTT
66 ACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAA-CTCCAAGTT
* * * * *
63980631 GATGGACATGAAGAGCCCTCGGAAATACTAGATCAACAGCGTCAACTCCAAGAA-A-AT-GA--G
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAGCGTCGACTCAAAGAACATATCGATGG
* * * * * * * * *
63980691 -CTCCATGTTG--CT-GGAAATGAGCTAGATGAACGAAGTCGACTCCAAGA-AAACAAACTCCAT
66 ACACGAAG-AGCCCTCGGAAAT--GCTAGATAAAAGACGTCGACTCCAAGAGAAA-GAACTCCAA
63980751 GTT
127 GTT
*** * * ** *
63980754 TCCGGACATGAAGAGCCATCGGAAATGCTAGATAAAC-GACGTCGACTCCTAGAAAATAAGCTCC
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAG-CGTCGACTCAAAGAACAT-A--T-C
* * * ** * * *
63980818 AAGTTGATCGACATGAACAGCCCTTAGAAATGCTAGATAAACGGCATCGACTCC------AAG-A
61 -----GATGGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAA
*
63980876 -T-CATGTT
121 CTCCAAGTT
** *
63980883 GATGGACACAAAGAGCCCTCAGAAATGCTAGATAAA-AGACGTCGACTCCAAGAGAAAGAACTCC
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAG-CGTCGACT-CAA-AG-AA-CA-T--
* * *
63980947 AAGTTGATGGACATGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCTAGA-AAATGA
58 -A-TCGATGGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAA-GA
*
63981011 GCTCCAAGTT
120 ACTCCAAGTT
*
63981021 GATGGACATGAAGAGCCCTCAAAAATGCTAGATAAACAGCGTCGACTCAAAGAACATATCGATGG
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAGCGTCGACTCAAAGAACATATCGATGG
* * * *
63981086 ACACAAAGAGCCCTCGAAAATGCTAGATAAAAGACGTCTACTCCAAGAGAAAGAGCTCCAAGTT
66 ACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGTT
* * * * * *
63981150 GATGGACATAAAGAGCCCTTAGAAATGCTAGATAAACAACGTCAACTCAAAGAACATGTCGATAG
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAGCGTCGACTCAAAGAACATATCGATGG
* * *
63981215 ACACAAACAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAAGTCCAAGTT
66 ACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGTT
*
63981279 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGG
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAGCGTCGACTCAAAGAACATATCGATGG
* *
63981344 ACATC-AAGAGCCCTCAGAAATGCTAGATAAACGACGTCGACTCCAAGAGAAAGAACTCCAAGTT
66 ACA-CGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGTT
* *
63981408 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAAC-GACATCAACTCAAAGAACATATCGATG
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAG-CGTCGACTCAAAGAACATATCGATG
* * *
63981472 GACACGAAGAG-CCTTGGCAAATGCTAGATAAAAGACGTCAACTCCAAGAGAAAAAACTCCAAGT
65 GACACGAAGAGCCCTCGG-AAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
63981536 T
129 T
*
63981537 GATGGACATGAAGAACCCTCAGAAATGCTAGATAAAC-GACGTCGACTCAAAGAACATATCGATG
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAG-CGTCGACTCAAAGAACATATCGATG
* * ** * *
63981601 GACACGAAGGGCTCTCAAAAAAGCTAGATAAAATACGTCGACTCCAAGAGAAAGAACTCCAAGTT
65 GACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGTT
* *
63981666 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATTGATGG
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAGCGTCGACTCAAAGAACATATCGATGG
* * * *
63981731 ACACGAAGAGCCCTTGGAAATGCTAGATAAAAGGCGTCAACT-C--GAGGAA-AA-T----GTT
66 ACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGTT
* * * * *
63981786 GATGGACA-CAGAGAGCCCTCAAAAATGCTAGATAAA-AGACATCGACTCCAAGAAAATGAGCTC
1 GATGGACATGA-AGAGCCCTCAGAAATGCTAGATAAACAG-CGTCGACTCAAAGAACAT-A--T-
* *
63981849 CATGTTGATGGACATGAAGAGCCCTCGGAAATGCTAGATAAACGACGTCGACTCCAAGA
60 C-----GATGGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGA
63981908 AAATGTTCAT
Statistics
Matches: 1557, Mismatches: 170, Indels: 129
0.84 0.09 0.07
Matches are distributed among these distances:
119 2 0.00
120 50 0.03
121 7 0.00
122 3 0.00
123 85 0.05
124 6 0.00
125 2 0.00
126 8 0.01
127 2 0.00
128 15 0.01
129 1254 0.81
130 15 0.01
131 3 0.00
132 4 0.00
133 5 0.00
134 4 0.00
135 6 0.00
136 4 0.00
137 6 0.00
138 67 0.04
139 4 0.00
140 5 0.00
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.17
Consensus pattern (129 bp):
GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACAGCGTCGACTCAAAGAACATATCGATGG
ACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGTT
Found at i:63980763 original size:123 final size:123
Alignment explanation
Indices: 63980459--63980823 Score: 335
Period size: 123 Copynumber: 2.9 Consensus size: 123
63980449 CTTGGGAAAT
* * * * * * *
63980459 GCTAGATAAAAGACGTCGACTCCAAGAGAAA-GAACTCCAAGTTGATGGACATGAAGAGCCCTCA
1 GCTAGATAAACGAAGTCGACTCCAAGA-AAACAAACTCCATGTTGACGGACATGAAGAGCCATCG
* * * * * * * *
63980523 GAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGGATACGAAG-AGCCCTCGGAAA
65 GAAATACTAGATAAACGACGTCAACTCCAAGAA-A-AT--A-AGCT-CCAAGTTG--CT-GGAAA
63980587 T--
121 TGA
* * * * *
63980588 GCTAGATAAACGACGTCGACTCCAAGAAAATAAGCTCCATGTTGATGGACATGAAGAGCCCTCGG
1 GCTAGATAAACGAAGTCGACTCCAAGAAAACAAACTCCATGTTGACGGACATGAAGAGCCATCGG
* * *
63980653 AAATACTAGATCAAC-AGCGTCAACTCCAAGAAAATGAGCTCCATGTTGCTGGAAATGA
66 AAATACTAGATAAACGA-CGTCAACTCCAAGAAAATAAGCTCCAAGTTGCTGGAAATGA
* **
63980711 GCTAGATGAACGAAGTCGACTCCAAGAAAACAAACTCCATGTTTCCGGACATGAAGAGCCATCGG
1 GCTAGATAAACGAAGTCGACTCCAAGAAAACAAACTCCATGTTGACGGACATGAAGAGCCATCGG
* * *
63980776 AAATGCTAGATAAACGACGTCGACTCCTAGAAAATAAGCTCCAAGTTG
66 AAATACTAGATAAACGACGTCAACTCCAAGAAAATAAGCTCCAAGTTG
63980824 ATCGACATGA
Statistics
Matches: 200, Mismatches: 30, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
121 6 0.03
122 2 0.01
123 100 0.50
124 4 0.02
127 2 0.01
128 4 0.02
129 82 0.41
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (123 bp):
GCTAGATAAACGAAGTCGACTCCAAGAAAACAAACTCCATGTTGACGGACATGAAGAGCCATCGG
AAATACTAGATAAACGACGTCAACTCCAAGAAAATAAGCTCCAAGTTGCTGGAAATGA
Found at i:63981700 original size:69 final size:66
Alignment explanation
Indices: 63980711--63981967 Score: 957
Period size: 69 Copynumber: 19.4 Consensus size: 66
63980701 CTGGAAATGA
* * * * *** * *
63980711 GCTAGATGAACGAAGTCGACTCCAAGAAAACAAACTCCATGTTTCCGGACATGAAGAGCCATCGG
1 GCTAGATAAAAGACGTCGACTCCAAGAGAA-AAACT-CA-GTTGATGGACATGAAGAGCCCTCAG
63980776 AAAT
63 AAAT
* * * * *
63980780 GCTAGATAAACGACGTCGACTCCTAGA-AAATAAGCTCCAAGTTGATCGACATGAACAGCCCTTA
1 GCTAGATAAAAGACGTCGACTCCAAGAGAAA-AA-CT-C-AGTTGATGGACATGAAGAGCCCTCA
63980844 GAAAT
62 GAAAT
* * * **
63980849 GCTAGATAAACGGCATCGACTCC-A-AG----A-TCATGTTGATGGACACAAAGAGCCCTCAGAA
1 GCTAGATAAAAGACGTCGACTCCAAGAGAAAAACTCA-GTTGATGGACATGAAGAGCCCTCAGAA
63980907 AT
65 AT
*
63980909 GCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGTTGATGGACATGAAGAGCCCTCGG
1 GCTAGATAAAAGACGTCGACTCCAAGAGAAA-AACT-C-AGTTGATGGACATGAAGAGCCCTCAG
63980974 AAAT
63 AAAT
* *
63980978 GCTAGATAAAAGACGTCGACTCCTAGA-AAATGAGCTCCAAGTTGATGGACATGAAGAGCCCTCA
1 GCTAGATAAAAGACGTCGACTCCAAGAGAAA--AACT-C-AGTTGATGGACATGAAGAGCCCTCA
*
63981042 AAAAT
62 GAAAT
* * **
63981047 GCTAGATAAACAG-CGTCGACT-CAA-AG-AACA-T-A-TCGATGGACACAAAGAGCCCTC-GAA
1 GCTAGATAAA-AGACGTCGACTCCAAGAGAAAAACTCAGTTGATGGACATGAAGAGCCCTCAG-A
63981104 AAT
64 AAT
* * * *
63981107 GCTAGATAAAAGACGTCTACTCCAAGAGAAAGAGCTCCAAGTTGATGGACATAAAGAGCCCTTAG
1 GCTAGATAAAAGACGTCGACTCCAAGAGAAA-AACT-C-AGTTGATGGACATGAAGAGCCCTCAG
63981172 AAAT
63 AAAT
* * * * ** * *
63981176 GCTAGATAAACA-ACGTCAACT-CAA-AG-AACA-T--GTCGATAGACACAAACAGCCCTCGGAA
1 GCTAGATAAA-AGACGTCGACTCCAAGAGAAAAACTCAGTTGATGGACATGAAGAGCCCTCAGAA
63981234 AT
65 AT
*
63981236 GCTAGATAAAAGACGTCGACTCCAAGAGAAAGAAGTCCAAGTTGATGGACATGAAGAGCCCTCAG
1 GCTAGATAAAAGACGTCGACTCCAAGAGAAA-AACT-C-AGTTGATGGACATGAAGAGCCCTCAG
63981301 AAAT
63 AAAT
* * * * *
63981305 GCTAGATAAACGGCGTCGACT-CAA-AG-AACA-T-A-TCGATGGACATCAAGAGCCCTCAGAAA
1 GCTAGATAAAAGACGTCGACTCCAAGAGAAAAACTCAGTTGATGGACATGAAGAGCCCTCAGAAA
63981364 T
66 T
*
63981365 GCTAGATAAACGACGTCGACTCCAAGAGAAAGAACTCCAAGTTGATGGACATGAAGAGCCCTCAG
1 GCTAGATAAAAGACGTCGACTCCAAGAGAAA-AACT-C-AGTTGATGGACATGAAGAGCCCTCAG
63981430 AAAT
63 AAAT
* * * * * * **
63981434 GCTAGATAAACGACATCAACT-CAA-AG-AACA-T-A-TCGATGGACACGAAGAG-CCTTGGCAA
1 GCTAGATAAAAGACGTCGACTCCAAGAGAAAAACTCAGTTGATGGACATGAAGAGCCCTCAG-AA
63981492 AT
65 AT
* *
63981494 GCTAGATAAAAGACGTCAACTCCAAGAGAAAAAACTCCAAGTTGATGGACATGAAGAACCCTCAG
1 GCTAGATAAAAGACGTCGACTCCAAGAG-AAAAACT-C-AGTTGATGGACATGAAGAGCCCTCAG
63981559 AAAT
63 AAAT
* * * * * * *
63981563 GCTAGATAAACGACGTCGACT-CAA-AG-AACA-T-A-TCGATGGACACGAAGGGCTCTCAAAAA
1 GCTAGATAAAAGACGTCGACTCCAAGAGAAAAACTCAGTTGATGGACATGAAGAGCCCTCAGAAA
*
63981622 A
66 T
*
63981623 GCTAGATAAAATACGTCGACTCCAAGAGAAAGAACTCCAAGTTGATGGACATGAAGAGCCCTCAG
1 GCTAGATAAAAGACGTCGACTCCAAGAGAAA-AACT-C-AGTTGATGGACATGAAGAGCCCTCAG
63981688 AAAT
63 AAAT
* * * * **
63981692 GCTAGATAAACGGCGTCGACT-CAA-AG-AACA-T-A-TTGATGGACACGAAGAGCCCTTGGAAA
1 GCTAGATAAAAGACGTCGACTCCAAGAGAAAAACTCAGTTGATGGACATGAAGAGCCCTCAGAAA
63981751 T
66 T
* * * * *
63981752 GCTAGATAAAAGGCGTCAACT-C--GAGGAAAA-T--GTTGATGGACA-CAGAGAGCCCTCAAAA
1 GCTAGATAAAAGACGTCGACTCCAAGAGAAAAACTCAGTTGATGGACATGA-AGAGCCCTCAGAA
63981810 AT
65 AT
* * *
63981812 GCTAGATAAAAGACATCGACTCCAAGA-AAATGAGCTCCATGTTGATGGACATGAAGAGCCCTCG
1 GCTAGATAAAAGACGTCGACTCCAAGAGAAA--AACT-CA-GTTGATGGACATGAAGAGCCCTCA
63981876 GAAAT
62 GAAAT
* * * *
63981881 GCTAGATAAACGACGTCGACTCC-A-AG-AAAA-T--GTTCATGGACACGAAGAGCCCTCGGAAA
1 GCTAGATAAAAGACGTCGACTCCAAGAGAAAAACTCAGTTGATGGACATGAAGAGCCCTCAGAAA
63981940 T
66 T
* *
63981941 GCTAGATAAAAGACTTAGACTCCAAGA
1 GCTAGATAAAAGACGTCGACTCCAAGA
63981968 AATTGAGCTT
Statistics
Matches: 969, Mismatches: 131, Indels: 183
0.76 0.10 0.14
Matches are distributed among these distances:
59 11 0.01
60 386 0.40
61 24 0.02
62 15 0.02
63 11 0.01
64 14 0.01
65 13 0.01
66 8 0.01
67 19 0.02
68 31 0.03
69 426 0.44
70 11 0.01
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.17
Consensus pattern (66 bp):
GCTAGATAAAAGACGTCGACTCCAAGAGAAAAACTCAGTTGATGGACATGAAGAGCCCTCAGAAA
T
Found at i:63981954 original size:129 final size:129
Alignment explanation
Indices: 63981724--63982040 Score: 413
Period size: 129 Copynumber: 2.5 Consensus size: 129
63981714 AAAGAACATA
* * * * * * *
63981724 TTGATGGACACGAAGAGCCCTTGGAAATGCTAGATAAAAGGCGTCAACTCGAGGAAAATGTTGAT
1 TTGATGGACATGAAGAGCCCTTGGAAATGCTAGATAAACGACGTCGACTCCAAGAAAATGTTCAT
*
63981789 GGACACAGAGAGCCCTCAAAAATGCTAGATAAAAGACATCGACTCCAAGAAAATGAGCTCCATG
66 GGACACAGAGAGCCCTCAAAAATGCTAGATAAAAGACATAGACTCCAAGAAAATGAGCTCCATG
*
63981853 TTGATGGACATGAAGAGCCCTCGGAAATGCTAGATAAACGACGTCGACTCCAAGAAAATGTTCAT
1 TTGATGGACATGAAGAGCCCTTGGAAATGCTAGATAAACGACGTCGACTCCAAGAAAATGTTCAT
** * * * *
63981918 GGACAC-GAAGAGCCCTCGGAAATGCTAGATAAAAGACTTAGACTCCAAGAAATTGAGCTTCGTG
66 GGACACAG-AGAGCCCTCAAAAATGCTAGATAAAAGACATAGACTCCAAGAAAATGAGCTCCATG
* * * * * *
63981982 TTGCTAGACAT-AGAGAACTCTTTGAAATGCTAGATAAACGACGTCGACTCCAAAAAAAT
1 TTGATGGACATGA-AGAGCCCTTGGAAATGCTAGATAAACGACGTCGACTCCAAGAAAAT
63982041 AAGCTCCATG
Statistics
Matches: 164, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
128 2 0.01
129 162 0.99
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (129 bp):
TTGATGGACATGAAGAGCCCTTGGAAATGCTAGATAAACGACGTCGACTCCAAGAAAATGTTCAT
GGACACAGAGAGCCCTCAAAAATGCTAGATAAAAGACATAGACTCCAAGAAAATGAGCTCCATG
Found at i:63982079 original size:69 final size:68
Alignment explanation
Indices: 63981919--63982084 Score: 172
Period size: 69 Copynumber: 2.4 Consensus size: 68
63981909 AATGTTCATG
* * * * * * *
63981919 GACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACTTAGACTCCAAGAAATTGAGCTTCGTGTT
1 GACATGAAGAGCCCTC-GAAATGCTAGATAAAAGACGTAGACTCCAAAAAAATAAGCTCCATGTT
63981984 GCTA
65 GCTA
* * * * *
63981988 GACAT-AGAGAACTCTTTGAAATGCTAGATAAACGACGTCGACTCCAAAAAAATAAGCTCCATGT
1 GACATGA-AGAGC-CCTCGAAATGCTAGATAAAAGACGTAGACTCCAAAAAAATAAGCTCCATGT
*
63982052 TGTTA
64 TGCTA
63982057 GACATGAAGAGCCCTCGAAAATGCTAGA
1 GACATGAAGAGCCCTCG-AAATGCTAGA
63982085 AAATGAGCTT
Statistics
Matches: 77, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
68 4 0.05
69 70 0.91
70 3 0.04
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (68 bp):
GACATGAAGAGCCCTCGAAATGCTAGATAAAAGACGTAGACTCCAAAAAAATAAGCTCCATGTTG
CTA
Found at i:63982109 original size:48 final size:48
Alignment explanation
Indices: 63982036--63982132 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 48
63982026 CGACTCCAAA
*
63982036 AAAATAAGCTCCATGTTGTTAGACATGAAGAGCCCTCGAAAATGCTAG
1 AAAATAAGCTCCATGTTGCTAGACATGAAGAGCCCTCGAAAATGCTAG
* * * *
63982084 AAAATGAGCTTCATGTTGCTGGACATGAAGAGCCCTCGGAAATGCTAG
1 AAAATAAGCTCCATGTTGCTAGACATGAAGAGCCCTCGAAAATGCTAG
63982132 A
1 A
63982133 TAAACGGCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (48 bp):
AAAATAAGCTCCATGTTGCTAGACATGAAGAGCCCTCGAAAATGCTAG
Found at i:63982181 original size:117 final size:117
Alignment explanation
Indices: 63981965--63982201 Score: 289
Period size: 117 Copynumber: 2.0 Consensus size: 117
63981955 TTAGACTCCA
* * * ** *
63981965 AGAAATTGAGCTTCGTGTTGCTAGACATAGAGAACTCTTTGAAATGCTAGATAAACGACGTCGAC
1 AGAAAATGAGCTTCATGTTGCTAGACATAGAGAACCCTCGGAAATGCTAGATAAACGACATCGAC
63982030 TCCAAAAAAATAAGCTCCATGTTGTTAGACATGAAGAGCCCTCGAAAATGCT
66 TCCAAAAAAATAAGCTCCATGTTGTTAGACATGAAGAGCCCTCGAAAATGCT
* * *
63982082 AGAAAATGAGCTTCATGTTGCTGGACAT-GAAGAGCCCTCGGAAATGCTAGATAAACGGCATCGA
1 AGAAAATGAGCTTCATGTTGCTAGACATAG-AGAACCCTCGGAAATGCTAGATAAACGACATCGA
* * ** * * * *
63982146 CTCCGAGAAAATGGGCTCCATGTT-TCTGGATATGAAGAGCCGTCGGAAATGCT
65 CTCCAAAAAAATAAGCTCCATGTTGT-TAGACATGAAGAGCCCTCGAAAATGCT
63982199 AGA
1 AGA
63982202 TAAACGACGT
Statistics
Matches: 101, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
116 2 0.02
117 99 0.98
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (117 bp):
AGAAAATGAGCTTCATGTTGCTAGACATAGAGAACCCTCGGAAATGCTAGATAAACGACATCGAC
TCCAAAAAAATAAGCTCCATGTTGTTAGACATGAAGAGCCCTCGAAAATGCT
Found at i:63982193 original size:69 final size:69
Alignment explanation
Indices: 63982082--63982433 Score: 336
Period size: 69 Copynumber: 5.1 Consensus size: 69
63982072 CGAAAATGCT
* * * * * *
63982082 AGAAAATGAGCTTCATGTTGCTGGACATGAAGAGCCCTCGGAAATGCTAGATAAACGGCATCGAC
1 AGAAAATGGGCTCCATGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCGAC
*
63982147 TCCG
66 TCCA
* * *
63982151 AGAAAATGGGCTCCATGTTTCTGGATATGAAGAGCCGTCGGAAATGCTAGATAAACGACGTCGAC
1 AGAAAATGGGCTCCATGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCGAC
63982216 TCCA
66 TCCA
** * * * * * * * ** *
63982220 AGAAGTTGAGCACCCTATTGTTGGACATGAAGAGCCGTC-GAAAGGGCTAGATAATCTCCGTCTA
1 AGAAAATGGGCTCCATGTTGCTGGACATGAAGAGCCGTCAGAAA-TGCTAGATAAACGACGTCGA
63982284 CTCCA
65 CTCCA
*
63982289 AGAAAA-GGAG-TCCACTGTTGCTGGACATGAAG-GACCGTCAGAAATGCTAGATAAACAACGTC
1 AGAAAATGG-GCTCCA-TGTTGCTGGACATGAAGAG-CCGTCAGAAATGCTAGATAAACGACGTC
*
63982351 TACTCCA
63 GACTCCA
* * * * * * *
63982358 AGAAAA-GGAGCCCCCTGTTGCTGGACATGAAGAGCCATCAGAAATTCTAGATAAACAACATCTA
1 AGAAAATGG-GCTCCATGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCGA
63982422 CTCCA
65 CTCCA
63982427 AGGAAAA
1 A-GAAAA
63982434 CAGTCCCCTG
Statistics
Matches: 237, Mismatches: 38, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
68 8 0.03
69 217 0.92
70 12 0.05
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (69 bp):
AGAAAATGGGCTCCATGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCGAC
TCCA
Found at i:63982249 original size:186 final size:186
Alignment explanation
Indices: 63981917--63982262 Score: 435
Period size: 186 Copynumber: 1.9 Consensus size: 186
63981907 AAAATGTTCA
* * * *
63981917 TGGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACTTAGACTCCAAGAAATTGAGCTTCGTG
1 TGGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACATAGACTCCAAGAAAATGAGCTCCATG
** *
63981982 TTGCTAGACATAGAGAACTCTTTGAAATGCTAGATAAACGACGTCGACTCCAAAAAAATAAGCTC
66 TTGCTAGACATAGAGAACTCTCGGAAATGCTAGATAAACGACGTCGACTCCAAAAAAATAAGCAC
*
63982047 CATGTTGTTAGACATGAAGAGCCCTCGAAAATGCTAGAAAATGAGCTTCATGTTGC
131 CATATTGTTAGACATGAAGAGCCCTCGAAAATGCTAGAAAATGAGCTTCATGTTGC
* * * * * *
63982103 TGGACATGAAGAGCCCTCGGAAATGCTAGATAAACGGCATCGACTCCGAGAAAATGGGCTCCATG
1 TGGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACATAGACTCCAAGAAAATGAGCTCCATG
* * * * * ** *
63982168 TTTCTGGATAT-GAAGAGC-CGTCGGAAATGCTAGATAAACGACGTCGACTCCAAGAAGTTGAGC
66 TTGCTAGACATAG-AGAACTC-TCGGAAATGCTAGATAAACGACGTCGACTCCAAAAAAATAAGC
* * *
63982231 ACCCTATTGTTGGACATGAAGAGCCGTCGAAA
129 ACCATATTGTTAGACATGAAGAGCCCTCGAAA
63982263 GGGCTAGATA
Statistics
Matches: 133, Mismatches: 25, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
185 2 0.02
186 131 0.98
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (186 bp):
TGGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACATAGACTCCAAGAAAATGAGCTCCATG
TTGCTAGACATAGAGAACTCTCGGAAATGCTAGATAAACGACGTCGACTCCAAAAAAATAAGCAC
CATATTGTTAGACATGAAGAGCCCTCGAAAATGCTAGAAAATGAGCTTCATGTTGC
Found at i:63982439 original size:138 final size:136
Alignment explanation
Indices: 63982097--63982433 Score: 381
Period size: 138 Copynumber: 2.4 Consensus size: 136
63982087 ATGAGCTTCA
* ** * *
63982097 TGTTGCTGGACATGAAGAGCCCTCGGAAATGCTAGATAAACGGCATCGACTCCGAGAAAATGG-G
1 TGTTGCTGGACATGAAGAGCCATC-GAAATGCTAGATAAACAACATCTACTCCAAGAAAA-GGAG
* * * * **
63982161 CTCCATGTTTCTGGATATGAAGAGCCGTCGGAAATGCTAGATAAACGACGTCGACTCCAAGAAGT
64 -TCCATGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACAACGTCGACTCCAAGAAAA
*
63982226 TGAGCACCC
128 GGAGCACCC
* * * * * ** *
63982235 TATTGTTGGACATGAAGAGCCGTCGAAAGGGCTAGATAATCTCCGTCTACTCCAAGAAAAGGAGT
1 TGTTGCTGGACATGAAGAGCCATCGAAA-TGCTAGATAAACAACATCTACTCCAAGAAAAGGAGT
*
63982300 CCACTGTTGCTGGACATGAAG-GACCGTCAGAAATGCTAGATAAACAACGTCTACTCCAAGAAAA
65 CCA-TGTTGCTGGACATGAAGAG-CCGTCAGAAATGCTAGATAAACAACGTCGACTCCAAGAAAA
*
63982364 GGAGCCCCC
128 GGAGCACCC
*
63982373 TGTTGCTGGACATGAAGAGCCATCAGAAATTCTAGATAAACAACATCTACTCCAAGGAAAA
1 TGTTGCTGGACATGAAGAGCCATC-GAAATGCTAGATAAACAACATCTACTCCAA-GAAAA
63982434 CAGTCCCCTG
Statistics
Matches: 165, Mismatches: 28, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
137 11 0.07
138 145 0.88
139 9 0.05
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (136 bp):
TGTTGCTGGACATGAAGAGCCATCGAAATGCTAGATAAACAACATCTACTCCAAGAAAAGGAGTC
CATGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACAACGTCGACTCCAAGAAAAGGA
GCACCC
Found at i:63982469 original size:69 final size:70
Alignment explanation
Indices: 63982280--63982503 Score: 188
Period size: 69 Copynumber: 3.2 Consensus size: 70
63982270 ATAATCTCCG
* * * * ** * ** *
63982280 TCTACTCCAA-GAAAAGGAGTCCACTGTTGCTGGACATGAAGGACCGTCAGAAATGCTAGATAAA
1 TCTACTCCAAGGAAAAGCAGCCCCCTGTTGCTCGACACAAAGAACCACCAGAAATTCTAGATAAA
*
63982344 CAACG
66 CAACA
* * ** * *
63982349 TCTACTCCAA-GAAAAGGAGCCCCCTGTTGCTGGACATGAAGAGCCATCAGAAATTCTAGATAAA
1 TCTACTCCAAGGAAAAGCAGCCCCCTGTTGCTCGACACAAAGAACCACCAGAAATTCTAGATAAA
63982413 CAACA
66 CAACA
* * *
63982418 TCTACTCCAAGGAAAA-CAGTCCCCTGGTT-TTCGACACAAAGAACCACCAG-AATTGCTCGATA
1 TCTACTCCAAGGAAAAGCAGCCCCCT-GTTGCTCGACACAAAGAACCACCAGAAATT-CTAGATA
*
63982480 AACGACA
64 AACAACA
* *
63982487 TGTACTCCAAGAAAAAG
1 TCTACTCCAAGGAAAAG
63982504 AACCGCATAT
Statistics
Matches: 132, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
68 4 0.03
69 120 0.91
70 8 0.06
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (70 bp):
TCTACTCCAAGGAAAAGCAGCCCCCTGTTGCTCGACACAAAGAACCACCAGAAATTCTAGATAAA
CAACA
Found at i:63982469 original size:138 final size:138
Alignment explanation
Indices: 63982191--63982501 Score: 322
Period size: 138 Copynumber: 2.3 Consensus size: 138
63982181 AGAGCCGTCG
* *** *
63982191 GAAATGCTAGATAAACGACGTCGACTCCAAGAAGTTGAGCACCCTATTGTTGGACATGAAGAGCC
1 GAAATGCTAGATAAACGACGTCTACTCCAAGAAAAGGAGCACCCTATTGCTGGACATGAAGAGCC
* * ** * * * **
63982256 GTCGAAAGGGCTAGATAATCTCCGTCTACTCCAAGAAAAGGAGTCCACTGTTGCTGGACATGAAG
66 ATCGAAAGGGCTAGATAAACAACATCTACTCCAAGAAAAGCAGTCCACTGTTGCTCGACACAAAG
* **
63982321 GACCGTCA
131 AACCACCA
* * *
63982329 GAAATGCTAGATAAACAACGTCTACTCCAAGAAAAGGAGCCCCCTGTTGCTGGACATGAAGAGCC
1 GAAATGCTAGATAAACGACGTCTACTCCAAGAAAAGGAGCACCCTATTGCTGGACATGAAGAGCC
** * *
63982394 ATCAGAAA-TTCTAGATAAACAACATCTACTCCAAGGAAAA-CAGTCCCCTGGTT-TTCGACACA
66 ATC-GAAAGGGCTAGATAAACAACATCTACTCCAA-GAAAAGCAGTCCACT-GTTGCTCGACACA
63982456 AAGAACCACCA
128 AAGAACCACCA
* * * *
63982467 GAATTGCTCGATAAACGACATGTACTCCAAGAAAA
1 GAAATGCTAGATAAACGACGTCTACTCCAAGAAAA
63982502 AGAACCGCAT
Statistics
Matches: 141, Mismatches: 29, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
138 129 0.91
139 12 0.09
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (138 bp):
GAAATGCTAGATAAACGACGTCTACTCCAAGAAAAGGAGCACCCTATTGCTGGACATGAAGAGCC
ATCGAAAGGGCTAGATAAACAACATCTACTCCAAGAAAAGCAGTCCACTGTTGCTCGACACAAAG
AACCACCA
Found at i:63985974 original size:16 final size:15
Alignment explanation
Indices: 63985930--63985990 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 15
63985920 TGAATTTAGG
63985930 AATT-AAAATAATAT
1 AATTAAAAATAATAT
* *
63985944 AATTGAGAAATTATAT
1 AATT-AAAAATAATAT
63985960 -ATTAAAAATAATAT
1 AATTAAAAATAATAT
63985974 AAATTTAAGAAATAATA
1 -AA-TTAA-AAATAATA
63985991 AAAAATATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 13 0.35
15 3 0.08
16 9 0.24
17 4 0.11
18 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (15 bp):
AATTAAAAATAATAT
Found at i:63991136 original size:29 final size:29
Alignment explanation
Indices: 63991090--63991149 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
63991080 ATAAAATATG
*
63991090 TTAAAAATTTGTACACACAAATTGTTGAT
1 TTAAAAATTTGGACACACAAATTGTTGAT
*
63991119 TTAAAAATTTGGATACACAAATTGTTGAT
1 TTAAAAATTTGGACACACAAATTGTTGAT
63991148 TT
1 TT
63991150 GTCTAATGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (29 bp):
TTAAAAATTTGGACACACAAATTGTTGAT
Found at i:64004316 original size:17 final size:19
Alignment explanation
Indices: 64004269--64004317 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 19
64004259 ACGTACATTA
64004269 ATTAAATCAATATTTAAGTCT
1 ATTAAAT-AAT-TTTAAGTCT
*
64004290 ACTAAA-AATTTTAA-T-T
1 ATTAAATAATTTTAAGTCT
64004306 ATTAAATAATTT
1 ATTAAATAATTT
64004318 AATATATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 6 0.24
17 6 0.24
18 5 0.20
19 3 0.12
21 5 0.20
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (19 bp):
ATTAAATAATTTTAAGTCT
Found at i:64006622 original size:20 final size:20
Alignment explanation
Indices: 64006564--64006622 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
64006554 TCTTTTATGA
*
64006564 ATTATAACATCTTCAAAT-AT
1 ATTATAAC-TATTCAAATAAT
* **
64006584 A-TATAATTATTCATCTAAT
1 ATTATAACTATTCAAATAAT
64006603 ATTATAACTATTCAAATAAT
1 ATTATAACTATTCAAATAAT
64006623 GAGAAAGGAT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
18 6 0.20
19 8 0.27
20 16 0.53
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTATAACTATTCAAATAAT
Found at i:64011290 original size:21 final size:21
Alignment explanation
Indices: 64011264--64011304 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
64011254 AGACGAGCAA
* *
64011264 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
64011285 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
64011305 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:64019336 original size:31 final size:30
Alignment explanation
Indices: 64019277--64019345 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
64019267 TTGGTACAAT
* * * *
64019277 TATATACAAGAAATTTTTATTGTGATTTAAA
1 TATATACACGAAACTTTCATTGTAATTT-AA
*
64019308 TATATACACGAAACTTTCATTTTAATTTAA
1 TATATACACGAAACTTTCATTGTAATTTAA
64019338 T-TATACAC
1 TATATACAC
64019346 ATTTAAAGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 7 0.21
30 3 0.09
31 23 0.70
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (30 bp):
TATATACACGAAACTTTCATTGTAATTTAA
Found at i:64022124 original size:16 final size:16
Alignment explanation
Indices: 64022103--64022141 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
64022093 TTTGGTTCAC
*
64022103 TGTAATGAAATAGAAT
1 TGTAATAAAATAGAAT
*
64022119 TGTAATAAAATAGAGT
1 TGTAATAAAATAGAAT
64022135 TGTAATA
1 TGTAATA
64022142 TATTTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (16 bp):
TGTAATAAAATAGAAT
Found at i:64022707 original size:30 final size:31
Alignment explanation
Indices: 64022654--64022711 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
64022644 AATAGCTTAG
64022654 TGACTTAAATAAAAACTTTTGAATAATTCAA
1 TGACTTAAATAAAAACTTTTGAATAATTCAA
*
64022685 TGACTTAAATGAAAAC-TTTGAATAATT
1 TGACTTAAATAAAAACTTTTGAATAATT
64022712 TAGGGACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.36
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTGAATAATTCAA
Found at i:64030774 original size:24 final size:23
Alignment explanation
Indices: 64030724--64030774 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 23
64030714 TTTTTTTGCT
64030724 AATTTAGGTTTTATTTTTTAATTA
1 AATTTAGGTTTTATTTTTTAA-TA
*
64030748 AATTTAGTTTTTAAATTTTTTAA-A
1 AATTTAGGTTTT--ATTTTTTAATA
64030772 AAT
1 AAT
64030775 AATCAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 15 0.62
26 9 0.38
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (23 bp):
AATTTAGGTTTTATTTTTTAATA
Found at i:64032876 original size:73 final size:73
Alignment explanation
Indices: 64032796--64032944 Score: 280
Period size: 73 Copynumber: 2.0 Consensus size: 73
64032786 TGTAGTTAAG
64032796 TATATATTAATGATAGTTCATTTTACCGATGATGACTCGATCTTAAATAAAATTTATTTGAATGT
1 TATATATTAATGATAGTTCATTTTACCGATGATGACTCGATCTTAAATAAAATTTATTTGAATGT
64032861 TTGTAATT
66 TTGTAATT
* *
64032869 TATATATTAATGATAGTTCATTTTACTGATGATGACTTGATCTTAAATAAAATTTATTTGAATGT
1 TATATATTAATGATAGTTCATTTTACCGATGATGACTCGATCTTAAATAAAATTTATTTGAATGT
64032934 TTGTAATT
66 TTGTAATT
64032942 TAT
1 TAT
64032945 TAAAATATAA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.47
Consensus pattern (73 bp):
TATATATTAATGATAGTTCATTTTACCGATGATGACTCGATCTTAAATAAAATTTATTTGAATGT
TTGTAATT
Found at i:64033879 original size:15 final size:15
Alignment explanation
Indices: 64033850--64033888 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
64033840 AGGAAAAAGG
64033850 GAAGAAAATAGAGAGA
1 GAAGAAAA-AGAGAGA
64033866 GAAGAAAAAGAGAGA
1 GAAGAAAAAGAGAGA
64033881 -AA-AAAAAG
1 GAAGAAAAAG
64033889 TTAAAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.26
14 2 0.09
15 7 0.30
16 8 0.35
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (15 bp):
GAAGAAAAAGAGAGA
Found at i:64038921 original size:29 final size:28
Alignment explanation
Indices: 64038867--64038928 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
64038857 AACTCTTCAA
**
64038867 ATTTTCGAAATTTAGTCCATTTACTTTT
1 ATTTTCGAAATTTAGTCCATCCACTTTT
* *
64038895 ATTTTCAGGAATTTAGTCCCTCCACTTTT
1 ATTTTC-GAAATTTAGTCCATCCACTTTT
*
64038924 CTTTT
1 ATTTT
64038929 TTAAGGAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.21, C:0.19, G:0.08, T:0.52
Consensus pattern (28 bp):
ATTTTCGAAATTTAGTCCATCCACTTTT
Found at i:64047594 original size:18 final size:18
Alignment explanation
Indices: 64047573--64047677 Score: 93
Period size: 18 Copynumber: 5.8 Consensus size: 18
64047563 GATCATCAAT
*
64047573 CTTACTCAAATCACCGAG
1 CTTACTCAAATCACCAAG
* *
64047591 CTTACTCAAACCTCCAAG
1 CTTACTCAAATCACCAAG
* * *
64047609 CGTACTGAAATCGCCAAG
1 CTTACTCAAATCACCAAG
* * * * *
64047627 CGTGCACAAATCTCCGAG
1 CTTACTCAAATCACCAAG
* *
64047645 ATTACTCAAATCGCCAAG
1 CTTACTCAAATCACCAAG
64047663 CTTACTCAAATCACC
1 CTTACTCAAATCACC
64047678 TCCAACCTGC
Statistics
Matches: 67, Mismatches: 20, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.33, C:0.33, G:0.12, T:0.21
Consensus pattern (18 bp):
CTTACTCAAATCACCAAG
Found at i:64047673 original size:36 final size:36
Alignment explanation
Indices: 64047574--64047674 Score: 112
Period size: 36 Copynumber: 2.8 Consensus size: 36
64047564 ATCATCAATC
* * * *
64047574 TTACTCAAATCACCGAGCTTACTCAAACCTCCAAGC
1 TTACTCAAATCGCCAAGCTTACTCAAATCTCCAAGA
* * * * * *
64047610 GTACTGAAATCGCCAAGCGTGCACAAATCTCCGAGA
1 TTACTCAAATCGCCAAGCTTACTCAAATCTCCAAGA
64047646 TTACTCAAATCGCCAAGCTTACTCAAATC
1 TTACTCAAATCGCCAAGCTTACTCAAATC
64047675 ACCTCCAACC
Statistics
Matches: 50, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.34, C:0.32, G:0.13, T:0.22
Consensus pattern (36 bp):
TTACTCAAATCGCCAAGCTTACTCAAATCTCCAAGA
Found at i:64051089 original size:114 final size:113
Alignment explanation
Indices: 64050886--64051267 Score: 502
Period size: 114 Copynumber: 3.4 Consensus size: 113
64050876 TTAGTAGCCA
* *
64050886 CTCCTGGAGAACTTTGGGCAGTCGAGATGGCATCGGATGAGACCTGCTTGATGAACCCAGAGGCA
1 CTCCTGGAGAA-TTTGGGCAGCCGAGATGGCATCGGATGAGACCTGCTTGATGAATCCAGAGGCA
*
64050951 GTGCCCAACAGTCCAGAATTCTGAGCCTGAGGAGACCCTTCCCCAGACC
65 GTGCCCAACAGTCCAGAATGCTGAGCCTGAGGAGACCCTTCCCCAGACC
*
64051000 CTCCTGGAGACATTTGGGCAACCGAGATGGCATCGGATGAGACCTGCTTGATGAATCCAGAGGCA
1 CTCCTGGAGA-ATTTGGGCAGCCGAGATGGCATCGGATGAGACCTGCTTGATGAATCCAGAGGCA
* * * *
64051065 GTACCCAACAGTTCAGAAGGCTGAGCCTGAGGAGACCC-TCCCTCAAACC
65 GTGCCCAACAGTCCAGAATGCTGAGCCTGAGGAGACCCTTCCC-CAGACC
* * *
64051114 CTCCTGGAG--TTTGGGCAGCCGAGATGGCATCGGAAGAGATCTGCTTGATGAGTCCAGAGGCAG
1 CTCCTGGAGAATTTGGGCAGCCGAGATGGCATCGGATGAGACCTGCTTGATGAATCCAGAGGCAG
* * * * *
64051177 TGCCCGACAGTCCAGAATGCTGAACCTGAGGAGGCCCTCCCCCAG-CTG
66 TGCCCAACAGTCCAGAATGCTGAGCCTGAGGAGACCCTTCCCCAGAC-C
* * * * *
64051225 CTCCTGAAGACATTTGTGCAGCCGAGATAGCTTCAGATGAGAC
1 CTCCTGGAGA-ATTTGGGCAGCCGAGATGGCATCGGATGAGAC
64051268 ATCCTAGACA
Statistics
Matches: 233, Mismatches: 28, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
110 1 0.00
111 91 0.39
112 3 0.01
113 4 0.02
114 133 0.57
115 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.29, T:0.19
Consensus pattern (113 bp):
CTCCTGGAGAATTTGGGCAGCCGAGATGGCATCGGATGAGACCTGCTTGATGAATCCAGAGGCAG
TGCCCAACAGTCCAGAATGCTGAGCCTGAGGAGACCCTTCCCCAGACC
Found at i:64053328 original size:15 final size:15
Alignment explanation
Indices: 64053308--64053361 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
64053298 TGATAAACTA
64053308 AAAAATTAAGTGTTG
1 AAAAATTAAGTGTTG
*
64053323 AAAAA-TATGTGTTG
1 AAAAATTAAGTGTTG
* * *
64053337 AAAAAATAAATATTG
1 AAAAATTAAGTGTTG
*
64053352 AATAATTAAG
1 AAAAATTAAG
64053362 GGTTATATTA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
14 13 0.42
15 18 0.58
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (15 bp):
AAAAATTAAGTGTTG
Found at i:64056871 original size:3 final size:3
Alignment explanation
Indices: 64056863--64056893 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
64056853 ATTTTTCCGT
64056863 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
64056894 ATGTTTTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:64057422 original size:6 final size:6
Alignment explanation
Indices: 64057416--64057461 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
64057406 ATAATAATAA
* * *
64057416 ATTTAA ATTTTAT ATTTAT ATTTAT ATTTAC ATTTAC ATTTAT ATT
1 ATTTAT ATT-TAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATT
64057462 AACATCAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
6 31 0.86
7 5 0.14
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (6 bp):
ATTTAT
Found at i:64057450 original size:18 final size:18
Alignment explanation
Indices: 64057424--64057466 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
64057414 AAATTTAAAT
* *
64057424 TTTATATTTATATTTATA
1 TTTACATTTACATTTATA
64057442 TTTACATTTACATTTATA
1 TTTACATTTACATTTATA
*
64057460 TTAACAT
1 TTTACAT
64057467 CAAATAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTACATTTACATTTATA
Found at i:64058045 original size:12 final size:12
Alignment explanation
Indices: 64058028--64058053 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
64058018 TATAAGACTC
64058028 TAACCTAAATTT
1 TAACCTAAATTT
64058040 TAACCTAAATTT
1 TAACCTAAATTT
64058052 TA
1 TA
64058054 TGACTCAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (12 bp):
TAACCTAAATTT
Found at i:64068075 original size:85 final size:85
Alignment explanation
Indices: 64067931--64068112 Score: 355
Period size: 85 Copynumber: 2.1 Consensus size: 85
64067921 TCAATCTCTA
64067931 GGCCCAAAAAAAAAATCAATAATCCACTATCCAACATGATCTGGGAAAACCCTACTGTTTTGTAA
1 GGCCC-AAAAAAAAATCAATAATCCACTATCCAACATGATCTGGGAAAACCCTACTGTTTTGTAA
64067996 CTAAAGGTCATGGGCTGAACC
65 CTAAAGGTCATGGGCTGAACC
64068017 GGCCCAAAAAAAAATCAATAATCCACTATCCAACATGATCTGGGAAAACCCTACTGTTTTGTAAC
1 GGCCCAAAAAAAAATCAATAATCCACTATCCAACATGATCTGGGAAAACCCTACTGTTTTGTAAC
64068082 TAAAGGTCATGGGCTGAACC
66 TAAAGGTCATGGGCTGAACC
64068102 GGCCCAAAAAA
1 GGCCCAAAAAA
64068113 TAATTTAAAA
Statistics
Matches: 96, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 91 0.95
86 5 0.05
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.21
Consensus pattern (85 bp):
GGCCCAAAAAAAAATCAATAATCCACTATCCAACATGATCTGGGAAAACCCTACTGTTTTGTAAC
TAAAGGTCATGGGCTGAACC
Found at i:64073089 original size:18 final size:18
Alignment explanation
Indices: 64073068--64073102 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
64073058 TTTACGTCAT
64073068 ACATGACATATATGTGTG
1 ACATGACATATATGTGTG
* *
64073086 ACATGAGATGTATGTGT
1 ACATGACATATATGTGT
64073103 TATTCATGAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (18 bp):
ACATGACATATATGTGTG
Found at i:64074931 original size:20 final size:19
Alignment explanation
Indices: 64074892--64074931 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
64074882 TATTTTAGTA
*
64074892 ATTTAATTATAATTTTTTT
1 ATTTAATTATAATGTTTTT
*
64074911 ATTTAATTATCGATGTTTTT
1 ATTTAATTAT-AATGTTTTT
64074931 A
1 A
64074932 AATTTTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (19 bp):
ATTTAATTATAATGTTTTT
Found at i:64078142 original size:14 final size:15
Alignment explanation
Indices: 64078125--64078158 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
64078115 TAAATAATCA
*
64078125 TTTTAAT-ATAATAT
1 TTTTAATGATAACAT
64078139 TTTTAATGATAACAT
1 TTTTAATGATAACAT
64078154 TTTTA
1 TTTTA
64078159 TTTTTATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (15 bp):
TTTTAATGATAACAT
Found at i:64078894 original size:33 final size:33
Alignment explanation
Indices: 64078857--64078961 Score: 122
Period size: 33 Copynumber: 3.2 Consensus size: 33
64078847 GCCTTCTTAT
* * *
64078857 ATAATCTTGAAAATCTTTATGAGCAGCTGCGAA
1 ATAATCTTGAAAATCTTCATGAGCATCTTCGAA
* *
64078890 ATAATC-TGCAAAATCTTGATAAGCATCTTCGAA
1 ATAATCTTG-AAAATCTTCATGAGCATCTTCGAA
* * *
64078923 ATAATCTTCAAAATCCTCGTGAGCATCTTCGAA
1 ATAATCTTGAAAATCTTCATGAGCATCTTCGAA
64078956 ATAATC
1 ATAATC
64078962 ACCACCCCGC
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
32 2 0.03
33 58 0.95
34 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.30
Consensus pattern (33 bp):
ATAATCTTGAAAATCTTCATGAGCATCTTCGAA
Found at i:64095667 original size:18 final size:18
Alignment explanation
Indices: 64095646--64095680 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
64095636 AAGAAACGAT
*
64095646 AAATATGTATATATATAA
1 AAATATGTACATATATAA
64095664 AAATATGTACATATATA
1 AAATATGTACATATATA
64095681 TGGGTGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (18 bp):
AAATATGTACATATATAA
Found at i:64096263 original size:3 final size:3
Alignment explanation
Indices: 64096214--64096245 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
64096204 AACACAAACA
64096214 AAT AAGT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT A
64096246 GAATAAACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:64097427 original size:27 final size:27
Alignment explanation
Indices: 64097387--64097455 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
64097377 TTTTTTTGTT
*
64097387 TTGGGTT-TTGGGCTGAGGGTAGGCTA
1 TTGGGTTATTGGGCTAAGGGTAGGCTA
64097413 TTGGGTTATTGGGCTAAGGGTAGGCTA
1 TTGGGTTATTGGGCTAAGGGTAGGCTA
64097440 TTGGGTTATTGGGCTA
1 TTGGGTTATTGGGCTA
64097456 GTGGTTCTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 7 0.17
27 34 0.83
ACGTcount: A:0.14, C:0.07, G:0.42, T:0.36
Consensus pattern (27 bp):
TTGGGTTATTGGGCTAAGGGTAGGCTA
Found at i:64107162 original size:26 final size:26
Alignment explanation
Indices: 64107120--64107171 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
64107110 TTTAAAGTTA
** *
64107120 ATTTTTTTTATTTTAAATA-TAAAAT
1 ATTTTTTTTATGATAAAAATTAAAAT
64107145 ATTTATTTTTATGATAAAAATTAAAAT
1 ATTT-TTTTTATGATAAAAATTAAAAT
64107172 TGTAAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 4 0.18
26 12 0.55
27 6 0.27
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (26 bp):
ATTTTTTTTATGATAAAAATTAAAAT
Found at i:64109563 original size:28 final size:29
Alignment explanation
Indices: 64109507--64109563 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
64109497 TTATAGGAAC
*
64109507 TGGATCAAATTAGTCCCTCTATTATTAAA
1 TGGATCAAATTAGTCCCTATATTATTAAA
*
64109536 TGGATCAATTTAGT-CCTATACTT-TTAAA
1 TGGATCAAATTAGTCCCTATA-TTATTAAA
64109564 AAGAATCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (29 bp):
TGGATCAAATTAGTCCCTATATTATTAAA
Found at i:64120003 original size:17 final size:18
Alignment explanation
Indices: 64119977--64120018 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
64119967 TTGAGTGACC
*
64119977 AAATATTTAAATT-AAAA
1 AAATAATTAAATTGAAAA
64119994 AAATAATTAAATTGAAAA
1 AAATAATTAAATTGAAAA
64120012 AAATAAT
1 AAATAAT
64120019 AATTTAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (18 bp):
AAATAATTAAATTGAAAA
Found at i:64120031 original size:29 final size:28
Alignment explanation
Indices: 64119999--64120072 Score: 78
Period size: 28 Copynumber: 2.5 Consensus size: 28
64119989 TAAAAAAATA
64119999 ATTAAATTGAAAAAAATAATAATTTA-AT
1 ATTAAATT-AAAAAAATAATAATTTATAT
* * *
64120027 GATTAAATTCAACATATAATAATTTATAT
1 -ATTAAATTAAAAAAATAATAATTTATAT
64120056 ATTAAATTTCAAAAAAA
1 ATTAAA-TT-AAAAAAA
64120073 AAAAACCTGA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
28 20 0.56
29 12 0.33
30 4 0.11
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (28 bp):
ATTAAATTAAAAAAATAATAATTTATAT
Found at i:64124430 original size:40 final size:38
Alignment explanation
Indices: 64124386--64124480 Score: 118
Period size: 39 Copynumber: 2.4 Consensus size: 38
64124376 ACTTTAGTAA
**
64124386 ATTGGGTTGGTAAATTGGATAGTCTTTTAGTTTTAGTTTT
1 ATTGGGTTGGT-AATTGGATAAAC-TTTAGTTTTAGTTTT
* *
64124426 ATTGGATTGGGTAATTGGGTAAACTTTAGTTTTAGTTTT
1 ATTGGGTT-GGTAATTGGATAAACTTTAGTTTTAGTTTT
64124465 ATTGGGTTGGGTAATT
1 ATTGGGTT-GGTAATT
64124481 AGGTTTGGGC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
39 30 0.61
40 16 0.33
41 3 0.06
ACGTcount: A:0.21, C:0.02, G:0.27, T:0.49
Consensus pattern (38 bp):
ATTGGGTTGGTAATTGGATAAACTTTAGTTTTAGTTTT
Found at i:64124542 original size:18 final size:18
Alignment explanation
Indices: 64124519--64124559 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
64124509 TTATTAATTT
64124519 TTTCGGTTAACCGACCAA
1 TTTCGGTTAACCGACCAA
*
64124537 TTTCGGTTAACCGACCGA
1 TTTCGGTTAACCGACCAA
64124555 TTTCG
1 TTTCG
64124560 AACTGAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (18 bp):
TTTCGGTTAACCGACCAA
Found at i:64132130 original size:105 final size:105
Alignment explanation
Indices: 64131948--64132161 Score: 428
Period size: 105 Copynumber: 2.0 Consensus size: 105
64131938 TATTGCAGCA
64131948 TTTCCTATAGAATCTCTTTCCCAGCTTCTAAAAATGGTAAAAGTTGATTTGGTTTAAAGCCTCCC
1 TTTCCTATAGAATCTCTTTCCCAGCTTCTAAAAATGGTAAAAGTTGATTTGGTTTAAAGCCTCCC
64132013 CAGGCCCCTACATTAAACCATGAAAGAACCCAGAGTTTGT
66 CAGGCCCCTACATTAAACCATGAAAGAACCCAGAGTTTGT
64132053 TTTCCTATAGAATCTCTTTCCCAGCTTCTAAAAATGGTAAAAGTTGATTTGGTTTAAAGCCTCCC
1 TTTCCTATAGAATCTCTTTCCCAGCTTCTAAAAATGGTAAAAGTTGATTTGGTTTAAAGCCTCCC
64132118 CAGGCCCCTACATTAAACCATGAAAGAACCCAGAGTTTGT
66 CAGGCCCCTACATTAAACCATGAAAGAACCCAGAGTTTGT
64132158 TTTC
1 TTTC
64132162 TTAAGGTATG
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 109 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (105 bp):
TTTCCTATAGAATCTCTTTCCCAGCTTCTAAAAATGGTAAAAGTTGATTTGGTTTAAAGCCTCCC
CAGGCCCCTACATTAAACCATGAAAGAACCCAGAGTTTGT
Found at i:64145287 original size:32 final size:33
Alignment explanation
Indices: 64145226--64145292 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 33
64145216 ATTTGTGATT
* *
64145226 TAAAAATAATAATTTTAACTATATTTTAATTAA
1 TAAAAATAATAATTATAACTATATTTTAATAAA
64145259 TAAAAATAAGTAATTATAA-T-TATTTTAATAAA
1 TAAAAATAA-TAATTATAACTATATTTTAATAAA
64145291 TA
1 TA
64145293 CATATTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 13 0.42
33 10 0.32
34 8 0.26
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (33 bp):
TAAAAATAATAATTATAACTATATTTTAATAAA
Found at i:64152135 original size:15 final size:16
Alignment explanation
Indices: 64152115--64152145 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
64152105 ACCTTGTTTG
64152115 ATAAATC-ATTAAAAA
1 ATAAATCAATTAAAAA
64152130 ATAAATCAATTAAAAA
1 ATAAATCAATTAAAAA
64152146 TTAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAAATCAATTAAAAA
Found at i:64152158 original size:16 final size:17
Alignment explanation
Indices: 64152139--64152172 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
64152129 AATAAATCAA
64152139 TTAA-AAATTAATATTT
1 TTAATAAATTAATATTT
*
64152155 TTAATAATTTAATATTT
1 TTAATAAATTAATATTT
64152172 T
1 T
64152173 AAGCACATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAATAAATTAATATTT
Found at i:64161025 original size:27 final size:27
Alignment explanation
Indices: 64160983--64161034 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
64160973 TTTTAATTTT
* *
64160983 AAAATACTTTTTAAATTACTTTTTAAA
1 AAAATACTTTTTAAATAAATTTTTAAA
64161010 AAAATA-TTTTTAAAATAAATTTTTA
1 AAAATACTTTTT-AAATAAATTTTTA
64161035 GTGTTTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (27 bp):
AAAATACTTTTTAAATAAATTTTTAAA
Found at i:64161026 original size:11 final size:12
Alignment explanation
Indices: 64160979--64161010 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
64160969 ATTTTTTTAA
64160979 TTTTAAAATACT
1 TTTTAAAATACT
*
64160991 TTTTAAATTACT
1 TTTTAAAATACT
64161003 TTTTAAAA
1 TTTTAAAA
64161011 AAATATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (12 bp):
TTTTAAAATACT
Found at i:64161034 original size:13 final size:13
Alignment explanation
Indices: 64160979--64161034 Score: 53
Period size: 12 Copynumber: 4.4 Consensus size: 13
64160969 ATTTTTTTAA
*
64160979 TTTTAAAAT-ACT
1 TTTTAAAATAAAT
* *
64160991 TTTT-AAATTACT
1 TTTTAAAATAAAT
*
64161003 TTTTAAAAAAATAT
1 TTTTAAAATAA-AT
64161017 TTTTAAAATAAAT
1 TTTTAAAATAAAT
64161030 TTTTA
1 TTTTA
64161035 GTGTTTATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 4 0.11
12 11 0.30
13 11 0.30
14 11 0.30
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTTAAAATAAAT
Found at i:64161360 original size:24 final size:24
Alignment explanation
Indices: 64161340--64161389 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
64161330 TACTTAACTA
64161340 TAACATAAATATTAAATTTAATAT
1 TAACATAAATATTAAATTTAATAT
* *
64161364 TAAGATAATTATTAAATTTAAT-T
1 TAACATAAATATTAAATTTAATAT
64161387 TAA
1 TAA
64161390 TATTAAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
TAACATAAATATTAAATTTAATAT
Found at i:64162275 original size:29 final size:30
Alignment explanation
Indices: 64162232--64162294 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
64162222 AGTGAGCCAG
***
64162232 AATAAAGTGTAAAATTGTTATATATATTATT
1 AATAAAGTGTAAAATTAAAATATATATTA-T
64162263 AATAAA-T-TAAAATTAAAATATATATTAT
1 AATAAAGTGTAAAATTAAAATATATATTAT
64162291 AATA
1 AATA
64162295 TGTTTTACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 5 0.17
29 17 0.59
30 1 0.03
31 6 0.21
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (30 bp):
AATAAAGTGTAAAATTAAAATATATATTAT
Found at i:64162828 original size:27 final size:27
Alignment explanation
Indices: 64162790--64162844 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
64162780 ATTGTGAAGA
64162790 ATAAAAATTAGTCTCGGTTTAGGGATT
1 ATAAAAATTAGTCTCGGTTTAGGGATT
64162817 ATAAAAATTAGTCTCGGTTTAGGGATT
1 ATAAAAATTAGTCTCGGTTTAGGGATT
64162844 A
1 A
64162845 AACTAGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.36
Consensus pattern (27 bp):
ATAAAAATTAGTCTCGGTTTAGGGATT
Found at i:64163250 original size:16 final size:16
Alignment explanation
Indices: 64163225--64163258 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
64163215 ATGAATATAT
* *
64163225 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
64163241 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
64163257 AT
1 AT
64163259 TGGATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:64163658 original size:28 final size:28
Alignment explanation
Indices: 64163605--64163688 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 28
64163595 ACATTTTGAC
* *
64163605 CCCTAAAATTTCTCAAAATTATATTTCAA
1 CCCTAAACTTT-TCTAAATTATATTTCAA
* *
64163634 CCCTAAACTTTTCTAAATTACATTTTAA
1 CCCTAAACTTTTCTAAATTATATTTCAA
*
64163662 CTCCTAAACTTTCCTAAAATTATATTT
1 C-CCTAAACTTTTCT-AAATTATATTT
64163689 TGACAATTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 15 0.32
29 22 0.47
30 10 0.21
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (28 bp):
CCCTAAACTTTTCTAAATTATATTTCAA
Found at i:64163683 original size:58 final size:60
Alignment explanation
Indices: 64163593--64163729 Score: 156
Period size: 58 Copynumber: 2.3 Consensus size: 60
64163583 TAAATTTTTT
* * *
64163593 TTACATTTTGACCCCTAAAATTTCTCAAAATTATATTTCAAC-CCTAAACTTT-TCTAAA
1 TTACATTTTAACCCCTAAAATTTCTCAAAATTATATTTCAACAACTAAACTTTCTCAAAA
* * ** *
64163651 TTACATTTTAACTCCTAAACTTTC-CTAAAATTATATTTTGACAATTAAACTTTCTCAAAA
1 TTACATTTTAACCCCTAAAATTTCTC-AAAATTATATTTCAACAACTAAACTTTCTCAAAA
*
64163711 TTACATTTTAGCCCC-AAAA
1 TTACATTTTAACCCCTAAAA
64163730 CTTTTACTGT
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
57 1 0.02
58 35 0.54
59 11 0.17
60 18 0.28
ACGTcount: A:0.37, C:0.21, G:0.02, T:0.39
Consensus pattern (60 bp):
TTACATTTTAACCCCTAAAATTTCTCAAAATTATATTTCAACAACTAAACTTTCTCAAAA
Found at i:64163689 original size:30 final size:29
Alignment explanation
Indices: 64163593--64163720 Score: 125
Period size: 30 Copynumber: 4.3 Consensus size: 29
64163583 TAAATTTTTT
* *
64163593 TTACATTTTGACCCCTAAAATTTCTCAAAA
1 TTACATTTT-AACCCTAAACTTTCTCAAAA
* * *
64163623 TTATATTTCAACCCTAAACTTT-TCTAAA
1 TTACATTTTAACCCTAAACTTTCTCAAAA
64163651 TTACATTTTAACTCCTAAACTTTC-CTAAAA
1 TTACATTTTAAC-CCTAAACTTTCTC-AAAA
* * **
64163681 TTATATTTTGACAATTAAACTTTCTCAAAA
1 TTACATTTTAAC-CCTAAACTTTCTCAAAA
64163711 TTACATTTTA
1 TTACATTTTA
64163721 GCCCCAAAAC
Statistics
Matches: 79, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
28 15 0.19
29 22 0.28
30 41 0.52
31 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.02, T:0.42
Consensus pattern (29 bp):
TTACATTTTAACCCTAAACTTTCTCAAAA
Found at i:64164256 original size:26 final size:24
Alignment explanation
Indices: 64164220--64164280 Score: 81
Period size: 23 Copynumber: 2.5 Consensus size: 24
64164210 ATCGGGGAGG
*
64164220 AAGAAAGAAAAAAGAAGAAAAAGAGA
1 AAGAAAGAAAAAAG--GAAAAAGAAA
64164246 AAGAAAG-AAAAAGGAAAAAGAAA
1 AAGAAAGAAAAAAGGAAAAAGAAA
64164269 AAG-AAGAAAAAA
1 AAGAAAGAAAAAA
64164281 ATAAAATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
22 3 0.09
23 17 0.52
25 6 0.18
26 7 0.21
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (24 bp):
AAGAAAGAAAAAAGGAAAAAGAAA
Found at i:64164258 original size:6 final size:6
Alignment explanation
Indices: 64164220--64164286 Score: 50
Period size: 6 Copynumber: 11.2 Consensus size: 6
64164210 ATCGGGGAGG
* *
64164220 AAGAAA GAAAAAA GAAGAAA AAGAGA AAG--A AAGAAA AAGGAAA AAGAAA
1 AAGAAA -AAGAAA -AAGAAA AAGAAA AAGAAA AAGAAA AA-GAAA AAGAAA
* *
64164269 AAGAAG AA-AAA AATAAA A
1 AAGAAA AAGAAA AAGAAA A
64164287 TTTTTTCAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
4 4 0.08
5 4 0.08
6 26 0.51
7 17 0.33
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.01
Consensus pattern (6 bp):
AAGAAA
Found at i:64164414 original size:19 final size:19
Alignment explanation
Indices: 64164372--64164421 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
64164362 TTCAGGCCCT
* *
64164372 AAAAAAAAGCAAAGCCCAA
1 AAAAAAAAGCAAAGACAAA
64164391 AAAAAAAAGCAAA-ACAAA
1 AAAAAAAAGCAAAGACAAA
*
64164409 ACAAAAAAG-AAAG
1 AAAAAAAAGCAAAG
64164422 CATGCCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 3 0.11
18 11 0.41
19 13 0.48
ACGTcount: A:0.76, C:0.14, G:0.10, T:0.00
Consensus pattern (19 bp):
AAAAAAAAGCAAAGACAAA
Found at i:64164775 original size:15 final size:15
Alignment explanation
Indices: 64164719--64164776 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
64164709 CATTTATATT
64164719 TTTAATTTTTAATTTAA
1 TTTAA-TTTT-ATTTAA
*
64164736 TTTAATTTAATTTAA
1 TTTAATTTTATTTAA
*
64164751 TTTAATTTTTATTTTA
1 TTTAA-TTTTATTTAA
*
64164767 TTTTATTTTA
1 TTTAATTTTA
64164777 AATACTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 16 0.44
16 15 0.42
17 5 0.14
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTAATTTTATTTAA
Found at i:64164776 original size:5 final size:5
Alignment explanation
Indices: 64164726--64164758 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
64164716 ATTTTTAATT
64164726 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
64164759 TTATTTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAA
Found at i:64164776 original size:10 final size:10
Alignment explanation
Indices: 64164719--64164774 Score: 58
Period size: 10 Copynumber: 5.3 Consensus size: 10
64164709 CATTTATATT
64164719 TTTAATTTTTAA
1 TTTAA-TTTT-A
*
64164731 TTTAATTTAA
1 TTTAATTTTA
*
64164741 TTTAATTTAA
1 TTTAATTTTA
64164751 TTTAATTTTTA
1 TTTAA-TTTTA
*
64164762 TTTTATTTTA
1 TTTAATTTTA
64164772 TTT
1 TTT
64164775 TAAATACTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
10 24 0.60
11 11 0.28
12 5 0.12
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTAATTTTA
Found at i:64164787 original size:32 final size:32
Alignment explanation
Indices: 64164710--64164788 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 32
64164700 ATATTTTTGC
64164710 ATTT-ATAT-TTTTAATTTTTAATTTAATTTA
1 ATTTAATATATTTTAATTTTTAATTTAATTTA
* * * *
64164740 ATTTAATTTAATTTAATTTTTATTTTATTTTA
1 ATTTAATATATTTTAATTTTTAATTTAATTTA
*
64164772 TTTTAA-ATACTTTTAAT
1 ATTTAATATA-TTTTAAT
64164789 AAATAAGGCA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
30 4 0.10
31 5 0.13
32 30 0.77
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (32 bp):
ATTTAATATATTTTAATTTTTAATTTAATTTA
Found at i:64164938 original size:18 final size:19
Alignment explanation
Indices: 64164917--64164965 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
64164907 AATCTCATGA
64164917 TTTCAAAAAATTTC-TATC
1 TTTCAAAAAATTTCGTATC
** *
64164935 TTTCAAAATTTTTCGTGTC
1 TTTCAAAAAATTTCGTATC
64164954 -TTCAAAAAATTT
1 TTTCAAAAAATTT
64164966 TTCTCGTGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.35, C:0.14, G:0.04, T:0.47
Consensus pattern (19 bp):
TTTCAAAAAATTTCGTATC
Found at i:64164982 original size:22 final size:20
Alignment explanation
Indices: 64164939--64164983 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
64164929 TCTATCTTTC
64164939 AAAATTTTTCGTGTCTTCAAA
1 AAAATTTTTCGTGTCTT-AAA
* *
64164960 AAATTTTTCTCGTGTTTTAAA
1 AAAATTTT-TCGTGTCTTAAA
64164981 AAA
1 AAA
64164984 TCCATTGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (20 bp):
AAAATTTTTCGTGTCTTAAA
Found at i:64165016 original size:17 final size:18
Alignment explanation
Indices: 64164992--64165380 Score: 200
Period size: 18 Copynumber: 22.0 Consensus size: 18
64164982 AATCCATTGA
64164992 TTCAAAAATTTTCGTGTT
1 TTCAAAAATTTTCGTGTT
*
64165010 TTCAAAAATTCTCGTGTT
1 TTCAAAAATTTTCGTGTT
* *
64165028 TTCAAAAATTCTAGTG-T
1 TTCAAAAATTTTCGTGTT
*
64165045 TTCAAAAATTCTCGTGTT
1 TTCAAAAATTTTCGTGTT
64165063 TT-AAAAA-TTTCTGTGTT
1 TTCAAAAATTTTC-GTGTT
* * *
64165080 TTCAAAAAGTTTCCTATT
1 TTCAAAAATTTTCGTGTT
**
64165098 TTCAAAATAAAAGTT-GTG-T
1 TTC--AA-AAATTTTCGTGTT
**
64165117 TTCAAAAATCCTCGTGTT
1 TTCAAAAATTTTCGTGTT
*
64165135 TTTAAAAA-TTTCG-GTGT
1 TTCAAAAATTTTCGTGT-T
* *
64165152 TTCAAAAATCTTCATGTT
1 TTCAAAAATTTTCGTGTT
* *
64165170 TTCAAAAA-TTCCG-GTGA
1 TTCAAAAATTTTCGTGT-T
*
64165187 TTC-AAAATTTTCTTGTT
1 TTCAAAAATTTTCGTGTT
64165204 TTCTAAAAA-TTTC-TGTGT
1 TTC-AAAAATTTTCGTGT-T
* *
64165222 TTCAAAAAATTTCGTTTT
1 TTCAAAAATTTTCGTGTT
* *
64165240 TTCACAAATTTCCGTGTT
1 TTCAAAAATTTTCGTGTT
** * * **
64165258 TTCAATGACTCTAATG-T
1 TTCAAAAATTTTCGTGTT
* * *
64165275 TTCACAAATTGTCATGTTTT
1 TTCAAAAATTTTC--GTGTT
***
64165295 TTTTTAAA-TTT-GTGTT
1 TTCAAAAATTTTCGTGTT
* *
64165311 TTGAAAAATTCTCGTG-T
1 TTCAAAAATTTTCGTGTT
*
64165328 TTCAAAAATTGTCGTGTT
1 TTCAAAAATTTTCGTGTT
* ***
64165346 TTAAAAAAAAATCGTG-T
1 TTCAAAAATTTTCGTGTT
*
64165363 TTCTAAAATTTTCGTGTT
1 TTCAAAAATTTTCGTGTT
64165381 CTAAAATTTC
Statistics
Matches: 277, Mismatches: 67, Indels: 54
0.70 0.17 0.14
Matches are distributed among these distances:
16 24 0.09
17 100 0.36
18 120 0.43
19 19 0.07
20 9 0.03
21 5 0.02
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.46
Consensus pattern (18 bp):
TTCAAAAATTTTCGTGTT
Found at i:64165048 original size:35 final size:34
Alignment explanation
Indices: 64164992--64165380 Score: 204
Period size: 35 Copynumber: 11.0 Consensus size: 34
64164982 AATCCATTGA
*
64164992 TTCAAAAATTTTCGTGTTTTCAAAAATTCTCGTGTT
1 TTCAAAAATTCT-GTG-TTTCAAAAATTCTCGTGTT
64165028 TTCAAAAATTCTAGTGTTTCAAAAATTCTCGTGTT
1 TTCAAAAATTCT-GTGTTTCAAAAATTCTCGTGTT
* *
64165063 TT-AAAAATTTCTGTGTTTTCAAAAAGTT-TCCTATT
1 TTCAAAAA-TTCTGTG-TTTCAAAAA-TTCTCGTGTT
* *
64165098 TTCAAAATAAAAGT-TGTGTTTCAAAAATCCTCGTGTT
1 TTC---A-AAAATTCTGTGTTTCAAAAATTCTCGTGTT
* * *
64165135 TTTAAAAATTTCGGTGTTTCAAAAA-TCTTCATGTT
1 TTCAAAAA-TTCTGTGTTTCAAAAATTC-TCGTGTT
* * * *
64165170 TTCAAAAATTCCGGTGATTC-AAAATTTTCTTGTT
1 TTCAAAAATT-CTGTGTTTCAAAAATTCTCGTGTT
*
64165204 TTCTAAAAATTTCTGTGTTTCAAAAAATT-TCGTTTT
1 TTC-AAAAA-TTCTGTGTTTC-AAAAATTCTCGTGTT
* * ** * **
64165240 TTCACAAATTTCCGTGTTTTCAATGACTCTAATG-T
1 TTCA-AAAATTCTGTG-TTTCAAAAATTCTCGTGTT
* * ***
64165275 TTCACAAATTGTCATGTTTTTTTTTAAATT-T-GTGTT
1 TTCA-AAAAT-TC-TG-TGTTTCAAAAATTCTCGTGTT
* *
64165311 TTGAAAAATTCTCGTGTTTCAAAAATTGTCGTGTT
1 TTCAAAAATTCT-GTGTTTCAAAAATTCTCGTGTT
* * * *
64165346 TTAAAAAAAAATC-GTGTTTCTAAAATTTTCGTGTT
1 TT--CAAAAATTCTGTGTTTCAAAAATTCTCGTGTT
64165381 CTAAAATTTC
Statistics
Matches: 275, Mismatches: 48, Indels: 61
0.72 0.12 0.16
Matches are distributed among these distances:
33 14 0.05
34 30 0.11
35 142 0.52
36 43 0.16
37 35 0.13
38 5 0.02
39 2 0.01
40 4 0.01
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.46
Consensus pattern (34 bp):
TTCAAAAATTCTGTGTTTCAAAAATTCTCGTGTT
Found at i:64165392 original size:15 final size:17
Alignment explanation
Indices: 64165315--64165401 Score: 65
Period size: 17 Copynumber: 5.2 Consensus size: 17
64165305 TGTGTTTTGA
* *
64165315 AAAATTCTCGTGTTTCA
1 AAAATTTTCGTGTTTCT
*
64165332 AAAATTGTCGTGTTT-T
1 AAAATTTTCGTGTTTCT
***
64165348 AAAAAAAAATCGTGTTTCT
1 --AAAATTTTCGTGTTTCT
64165367 AAAATTTTCGTG-TTCT
1 AAAATTTTCGTGTTTCT
*
64165383 AAAA-TTTCGT-TTTTT
1 AAAATTTTCGTGTTTCT
64165398 AAAA
1 AAAA
64165402 AACAAAAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
15 13 0.23
16 8 0.14
17 23 0.40
18 12 0.21
19 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.44
Consensus pattern (17 bp):
AAAATTTTCGTGTTTCT
Found at i:64173985 original size:24 final size:23
Alignment explanation
Indices: 64173931--64173985 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
64173921 GTTTATTTTT
*
64173931 TAAATAATATATTTTCATAATTAT
1 TAAA-AATATATTTTCATAATTAA
*
64173955 TATAAATATATTTTTC-TAATTGAA
1 TAAAAATATA-TTTTCATAATT-AA
64173979 TAAAAAT
1 TAAAAAT
64173986 TGGTCTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (23 bp):
TAAAAATATATTTTCATAATTAA
Found at i:64174421 original size:5 final size:5
Alignment explanation
Indices: 64174411--64174447 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
64174401 TTATCATATT
64174411 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TA
64174448 TATTTATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:64174504 original size:28 final size:28
Alignment explanation
Indices: 64174473--64174528 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
64174463 AAACTTGATT
*
64174473 TTTTATTA-ATTTTTAA-TTTATTCAATTA
1 TTTTA-TAGATTTATAATTTTATT-AATTA
64174501 TTTTATAGATTTATAATTTTATTAATTA
1 TTTTATAGATTTATAATTTTATTAATTA
64174529 ATAATATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 2 0.08
28 17 0.68
29 6 0.24
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTTATAGATTTATAATTTTATTAATTA
Found at i:64174625 original size:15 final size:15
Alignment explanation
Indices: 64174580--64174625 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
64174570 ATATGACCAA
**
64174580 ATTAATTAATATCGC
1 ATTAATTAATATTAC
*
64174595 ATTAATATACTATTAC
1 ATTAAT-TAATATTAC
64174611 ATTAATTAATATTAC
1 ATTAATTAATATTAC
64174626 TTTTACTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.43
Consensus pattern (15 bp):
ATTAATTAATATTAC
Found at i:64175039 original size:9 final size:9
Alignment explanation
Indices: 64175025--64175071 Score: 76
Period size: 9 Copynumber: 5.2 Consensus size: 9
64175015 TTTGGTTAAA
64175025 AATTACCCG
1 AATTACCCG
64175034 AATTACCCG
1 AATTACCCG
64175043 AATTACCCG
1 AATTACCCG
*
64175052 AATTAACCG
1 AATTACCCG
*
64175061 AATTAACCG
1 AATTACCCG
64175070 AA
1 AA
64175072 AAATACCCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.40, C:0.28, G:0.11, T:0.21
Consensus pattern (9 bp):
AATTACCCG
Found at i:64175202 original size:40 final size:39
Alignment explanation
Indices: 64175157--64175246 Score: 126
Period size: 39 Copynumber: 2.3 Consensus size: 39
64175147 GACTTTAGTA
*
64175157 AATTGGGTTGTCTTTTAGTTTTAGTTTTATTGGATTGGGT
1 AATTGGGTTGAC-TTTAGTTTTAGTTTTATTGGATTGGGT
** *
64175197 AATTGGGTAAACTTTAGTTTTAGTTTTATTGGGTTGGGT
1 AATTGGGTTGACTTTAGTTTTAGTTTTATTGGATTGGGT
64175236 AATTGAGGTTG
1 AATTG-GGTTG
64175247 GGTTGGGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 31 0.72
40 12 0.28
ACGTcount: A:0.19, C:0.02, G:0.29, T:0.50
Consensus pattern (39 bp):
AATTGGGTTGACTTTAGTTTTAGTTTTATTGGATTGGGT
Found at i:64176347 original size:35 final size:35
Alignment explanation
Indices: 64176301--64176372 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
64176291 ATGCAAAAAG
64176301 ATAAGATGAGATTGCAAAAGGGAAACTTCGATGTA
1 ATAAGATGAGATTGCAAAAGGGAAACTTCGATGTA
64176336 ATAAGATGAGATTGCAAAAGGGAAACTTCGATGTA
1 ATAAGATGAGATTGCAAAAGGGAAACTTCGATGTA
64176371 AT
1 AT
64176373 TTTAATTGGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.43, C:0.08, G:0.25, T:0.24
Consensus pattern (35 bp):
ATAAGATGAGATTGCAAAAGGGAAACTTCGATGTA
Found at i:64179321 original size:21 final size:19
Alignment explanation
Indices: 64179297--64179339 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
64179287 TTTAGACTTG
64179297 TTTTTA-AATATTATAGATAA
1 TTTTTATAATATT-TAG-TAA
64179317 TTTTTATAATATTTAGT-A
1 TTTTTATAATATTTAGTAA
64179335 TTTTT
1 TTTTT
64179340 TTGGGAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.27
19 1 0.05
20 9 0.41
21 6 0.27
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
TTTTTATAATATTTAGTAA
Found at i:64185002 original size:13 final size:15
Alignment explanation
Indices: 64184983--64185022 Score: 57
Period size: 13 Copynumber: 2.8 Consensus size: 15
64184973 GGGACAAATC
64184983 GAAACTAAAAA-AAA
1 GAAACTAAAAATAAA
64184997 -AAACTAAAAATAAA
1 GAAACTAAAAATAAA
*
64185011 GAAAGTAAAAAT
1 GAAACTAAAAAT
64185023 GGTATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 10 0.43
14 3 0.13
15 10 0.43
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.12
Consensus pattern (15 bp):
GAAACTAAAAATAAA
Found at i:64185371 original size:30 final size:31
Alignment explanation
Indices: 64185335--64185409 Score: 109
Period size: 30 Copynumber: 2.5 Consensus size: 31
64185325 GAGTTTTAAT
64185335 ATTCTATAGGATTTTTTACCAAAAA-AAAAA
1 ATTCTATAGGATTTTTTACCAAAAATAAAAA
*
64185365 ATTCTATAAGATTTTTTACCAAAAATAAAAA
1 ATTCTATAGGATTTTTTACCAAAAATAAAAA
*
64185396 GTAT-TATAGGATTT
1 AT-TCTATAGGATTT
64185410 CTAACATTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
30 24 0.60
31 15 0.38
32 1 0.03
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (31 bp):
ATTCTATAGGATTTTTTACCAAAAATAAAAA
Done.